Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013772.1 Kokia drynarioides strain JFW-HI SEQ_128800, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 322742
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 107 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:23 original size:17 final size:18
Alignment explanation
Indices: 1--90 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 18
*
1 TTTAAA-TTCATAATAAT
1 TTTAAATTTCATAATAAA
*
18 TTTAAATTTGATAATAAA
1 TTTAAATTTCATAATAAA
36 TTTAAA---C-T--TAAA
1 TTTAAATTTCATAATAAA
* *
48 TTTAAATTT-AAAATACA
1 TTTAAATTTCATAATAAA
*
65 TTTAAATTT-AAAATAAA
1 TTTAAATTTCATAATAAA
*
82 TTTTAATTT
1 TTTAAATTT
91 TTAAACAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
12 10 0.17
14 1 0.02
17 33 0.56
18 15 0.25
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (18 bp):
TTTAAATTTCATAATAAA
Found at i:46 original size:6 final size:6
Alignment explanation
Indices: 32--90 Score: 59
Period size: 6 Copynumber: 10.2 Consensus size: 6
22 AATTTGATAA
* * * *
32 TAAATT TAAACT TAAATT TAAATT TAAA-A TACATT TAAATT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
78 TAAATT TTAATT T
1 TAAATT TAAATT T
91 TTAAACAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
5 7 0.17
6 35 0.83
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
TAAATT
Found at i:103 original size:17 final size:17
Alignment explanation
Indices: 32--122 Score: 103
Period size: 17 Copynumber: 5.2 Consensus size: 17
22 AATTTGATAA
*
32 TAAATTTAAACTTAAATT
1 TAAATTTAAA-ATAAATT
*
50 TAAATTTAAAATACATT
1 TAAATTTAAAATAAATT
67 TAAATTTAAAATAAATTT
1 TAAATTTAAAATAAA-TT
* * *
85 TAATTTTTAAACAAATT
1 TAAATTTAAAATAAATT
102 T-AATCTTAAAATAAATT
1 TAAAT-TTAAAATAAATT
119 TAAA
1 TAAA
123 GGGGAGCTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 2 0.03
17 33 0.54
18 26 0.43
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:103 original size:35 final size:35
Alignment explanation
Indices: 32--119 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
22 AATTTGATAA
* * *
32 TAAATTTAAACTTAAA-TTTAAATTTAAAATACATT
1 TAAATTTAAA-ATAAATTTTAAATTTAAAACAAATT
* *
67 TAAATTTAAAATAAATTTTAATTTTTAAACAAATT
1 TAAATTTAAAATAAATTTTAAATTTAAAACAAATT
102 T-AATCTTAAAATAAATTT
1 TAAAT-TTAAAATAAATTT
120 AAAGGGGAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 7 0.15
35 39 0.85
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (35 bp):
TAAATTTAAAATAAATTTTAAATTTAAAACAAATT
Found at i:13186 original size:50 final size:50
Alignment explanation
Indices: 13060--13186 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 50
13050 TCTTTTACCT
* * * *
13060 CTAAAGCTGTGGAGGTGCAGATTGAAACCGCAATGGAAAATCTCATATAC
1 CTAAAGTTGTAGAGGGGCAGATTGAAGCCGCAATGGAAAATCTCATATAC
* * *
13110 CTAAAGCTT-TTGAGGGGCAGAATGAAGCCGCAATGGCAAATCTCAT-TCAC
1 CTAAAG-TTGTAGAGGGGCAGATTGAAGCCGCAATGGAAAATCTCATAT-AC
*
13160 CTAAAGTTGTAGAGGGGAAGATTGAAG
1 CTAAAGTTGTAGAGGGGCAGATTGAAG
13187 TCACAAGGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.05
50 61 0.94
51 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (50 bp):
CTAAAGTTGTAGAGGGGCAGATTGAAGCCGCAATGGAAAATCTCATATAC
Found at i:13299 original size:40 final size:40
Alignment explanation
Indices: 13243--13318 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
13233 ACAACCTCGA
*
13243 ATCTTTTATCCCAACTATG-GGGCAGATTGAAGTAATTTAG
1 ATCTTTTATCCCAACTA-GAAGGCAGATTGAAGTAATTTAG
13283 ATCTTTTA-CCCTAACTAGAAGGCAGATTGAAGTAAT
1 ATCTTTTATCCC-AACTAGAAGGCAGATTGAAGTAAT
13319 CCAGATATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (40 bp):
ATCTTTTATCCCAACTAGAAGGCAGATTGAAGTAATTTAG
Found at i:13485 original size:40 final size:40
Alignment explanation
Indices: 13408--13495 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
13398 TCAGATCTTT
* * * *
13408 TTGAAGACCATTCAATCTCTTACCCTGCCCATGGGGCAGA
1 TTGAAGACCATACAATCTCTTACCCCGACCATGGGGCAAA
* *
13448 TTGAAGACCATACGATCTCTTACCCCGACTA-GAGGGCAAA
1 TTGAAGACCATACAATCTCTTACCCCGACCATG-GGGCAAA
13488 TTGAAGAC
1 TTGAAGAC
13496 TATCCGATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
TTGAAGACCATACAATCTCTTACCCCGACCATGGGGCAAA
Found at i:13574 original size:48 final size:48
Alignment explanation
Indices: 13520--13615 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
13510 CCCATAAAGC
13520 TATAGAGAGATAGATTGAAGCTACAAAAGCAAATCTTATACCCCTAAA
1 TATAGAGAGATAGATTGAAGCTACAAAAGCAAATCTTATACCCCTAAA
*
13568 TATAGAGAGATAGATTGAAGCTACAAAAGTAAATCTTATACCCCTAAA
1 TATAGAGAGATAGATTGAAGCTACAAAAGCAAATCTTATACCCCTAAA
13616 GTTATAAAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.24
Consensus pattern (48 bp):
TATAGAGAGATAGATTGAAGCTACAAAAGCAAATCTTATACCCCTAAA
Found at i:25701 original size:20 final size:20
Alignment explanation
Indices: 25659--25703 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25649 TCATTAAGCT
* *
25659 TTAATTAACCCCTTTTTATC
1 TTAATTAACACCTATTTATC
25679 TTAATTAA-ACCTATTTATAC
1 TTAATTAACACCTATTTAT-C
25699 TTAAT
1 TTAAT
25704 ATAGCTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATTAACACCTATTTATC
Found at i:26523 original size:18 final size:18
Alignment explanation
Indices: 26500--26534 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26490 AGAAGCTCAT
26500 ATTATTTT-TATTTATTTC
1 ATTATTTTATA-TTATTTC
26518 ATTATTTTATATTATTT
1 ATTATTTTATATTATTT
26535 TGGTATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTATTTTATATTATTTC
Found at i:31960 original size:47 final size:47
Alignment explanation
Indices: 31897--31993 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
31887 AATTAAATAA
*
31897 AATCATGTTTGTGTTATACTTGCATTACAATTGTAAGATAACGAATG
1 AATCATGTTTATGTTATACTTGCATTACAATTGTAAGATAACGAATG
* *
31944 AATCATGTTTATGTTATACTTGCATTATAATTGTAAGATAATGAATG
1 AATCATGTTTATGTTATACTTGCATTACAATTGTAAGATAACGAATG
31991 AAT
1 AAT
31994 TAATCATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (47 bp):
AATCATGTTTATGTTATACTTGCATTACAATTGTAAGATAACGAATG
Found at i:43767 original size:18 final size:17
Alignment explanation
Indices: 43732--43774 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
43722 ACACTCCACC
43732 TTTCCTTCTTCTCTTCT
1 TTTCCTTCTTCTCTTCT
43749 TTTCTCTTCTTCT-TCTCT
1 TTTC-CTTCTTCTCT-TCT
*
43767 TTTACTTC
1 TTTCCTTC
43775 AAAATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCCTTCTTCTCTTCT
Found at i:43774 original size:11 final size:11
Alignment explanation
Indices: 43736--43767 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
43726 TCCACCTTTC
43736 CTTCTTCTCTT
1 CTTCTTCTCTT
43747 CTT-TTCTCTT
1 CTTCTTCTCTT
43757 CTTCTTCTCTT
1 CTTCTTCTCTT
43768 TTACTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (11 bp):
CTTCTTCTCTT
Found at i:43981 original size:16 final size:16
Alignment explanation
Indices: 43960--43994 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43950 ATCAAAAAAA
*
43960 TTATTTTTTAATTATT
1 TTATTTTTCAATTATT
*
43976 TTATTTTTCATTTATT
1 TTATTTTTCAATTATT
43992 TTA
1 TTA
43995 AAAATGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTCAATTATT
Found at i:44548 original size:33 final size:33
Alignment explanation
Indices: 44511--44574 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
44501 AAGGATGCAC
44511 AGAACAAATCACCCTACATGCACTTCAACACTA
1 AGAACAAATCACCCTACATGCACTTCAACACTA
44544 AGAACAAATCACCCTACATGCACTTCAACAC
1 AGAACAAATCACCCTACATGCACTTCAACAC
44575 AGATTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.34, G:0.06, T:0.17
Consensus pattern (33 bp):
AGAACAAATCACCCTACATGCACTTCAACACTA
Found at i:46057 original size:19 final size:19
Alignment explanation
Indices: 46033--46073 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
46023 TGATACTTTA
*
46033 ATGTGGCGTAGTACTAATT
1 ATGTGGCGTAATACTAATT
* *
46052 ATGTGGTGTAATACTAGTT
1 ATGTGGCGTAATACTAATT
46071 ATG
1 ATG
46074 CACTTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.39
Consensus pattern (19 bp):
ATGTGGCGTAATACTAATT
Found at i:46840 original size:3 final size:3
Alignment explanation
Indices: 46832--46872 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
46822 GTTTGATTCG
46832 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46873 TATTGAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47537 original size:11 final size:11
Alignment explanation
Indices: 47521--47553 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
47511 AAAAAATTTT
47521 AATTTTTTTAA
1 AATTTTTTTAA
47532 AATTTTTTT-A
1 AATTTTTTTAA
47542 AATTTTTTTAA
1 AATTTTTTTAA
47553 A
1 A
47554 TTTGAAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:47539 original size:10 final size:10
Alignment explanation
Indices: 47517--47556 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
47507 ACCCAAAAAA
47517 TTTT-AATTT
1 TTTTAAATTT
47526 TTTTAAAATTT
1 TTTT-AAATTT
47537 TTTTAAATTT
1 TTTTAAATTT
47547 TTTTAAATTT
1 TTTTAAATTT
47557 GAAACGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 4 0.14
10 16 0.55
11 9 0.31
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:50747 original size:65 final size:67
Alignment explanation
Indices: 50635--50814 Score: 231
Period size: 65 Copynumber: 2.7 Consensus size: 67
50625 GAATAGAATG
* * * *
50635 TGATTTATGTATTGAATTTTTATTCTTGTATCAAATTAAATTATTTACATATATTTGCATTATGT
1 TGATTTTTGTATT-AATTATCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGT
50700 TTC
65 TTC
50703 T-ATTTTT-TATTGAA-TATCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGT
1 TGATTTTTGTATT-AATTATCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGT
*
50765 TTT
65 TTC
* * * *
50768 TGTTTTTTGTATTAATTTTTCATTATTGTATCAACTTCAATTATTTA
1 TGATTTTTGTATTAA-TTATCATTCTTGTATCAACTTAAATTATTTA
50815 GATGAACTTG
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
65 48 0.48
66 14 0.14
67 9 0.09
68 28 0.28
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.56
Consensus pattern (67 bp):
TGATTTTTGTATTAATTATCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTT
TC
Found at i:56713 original size:18 final size:18
Alignment explanation
Indices: 56673--56713 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56663 TCATTCTATA
56673 AAAAATTATAAAAAAAAT
1 AAAAATTATAAAAAAAAT
* **
56691 CAAAATTATTTAAAAAAT
1 AAAAATTATAAAAAAAAT
56709 AAAAA
1 AAAAA
56714 ATTCTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATTATAAAAAAAAT
Found at i:58991 original size:30 final size:30
Alignment explanation
Indices: 58928--59241 Score: 236
Period size: 30 Copynumber: 10.6 Consensus size: 30
58918 AAAAATGAAA
* * *
58928 TTTTGGAAAGTTT-GGTGCCAAAAC-ATAAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTAT-AT
* * *
58957 TTTTGGAAAGTTCAAGGGTTAAATCTATAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTATAT
*
58987 TTTTGGAAA-TATTAGGGGTCAAATCTAAAT
1 TTTTGGAAAGT-TTAGGGGTCAAATCTATAT
* *
59017 TTTTGGTAAGTTTAGGGGTCAAATTTGA-AT
1 TTTTGGAAAGTTTAGGGGTCAAATCT-ATAT
* * * * *
59047 TTTTGGCAAGTTT-GAGATGAAAACT-TAAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTAT-AT
* *
59076 TTTTGG-AAGTTTGGGGGTCAAAAC-ATAAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTAT-AT
* *
59105 TTTTGGAAAGTTTGGGGGTCAAAAC-ATAAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTAT-AT
* * *
59135 TTTTGGAAAGTTT-GAGGGTTAAATTTAAAT
1 TTTTGGAAAGTTTAG-GGGTCAAATCTATAT
* * * * *
59165 TTTT-GAAAGTTTAAGGGTTAGATTTAAAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTATAT
*
59194 TTTTGAAAAGTTTAGGGGTCAAATCTATAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTATAT
*
59224 TTTTGGATAGTTTAGGGG
1 TTTTGGAAAGTTTAGGGG
59242 GCCAAATATA
Statistics
Matches: 236, Mismatches: 35, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
28 6 0.03
29 73 0.31
30 152 0.64
31 5 0.02
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTCAAATCTATAT
Found at i:59116 original size:88 final size:89
Alignment explanation
Indices: 58928--59236 Score: 249
Period size: 89 Copynumber: 3.5 Consensus size: 89
58918 AAAAATGAAA
* * ** * * *
58928 TTTTGGAAAGTTT-GGTGCCAAAACATAATTTTTGGAAAGTTCAAGGGTTAAATC-TATATTTTT
1 TTTTGGAAAGTTTAGGGGTCAAAACATAATTTTTGGAAAGTTTGA-GATGAAAACTTA-ATTTTT
*
58991 GGAAATATTAGGGGTCAAATCTAAAT
64 GGAAATATTAGGGGTCAAAACTAAAT
* ** *
59017 TTTTGGTAAGTTTAGGGGTC-AAATTTGAATTTTTGGCAAGTTTGAGATGAAAACTTAATTTTTG
1 TTTTGGAAAGTTTAGGGGTCAAAACAT-AATTTTTGGAAAGTTTGAGATGAAAACTTAATTTTTG
* *
59081 GAAGT-TTGGGGGTCAAAAC-ATAAT
65 GAAATATTAGGGGTCAAAACTA-AAT
* * * *
59105 TTTTGGAAAGTTTGGGGGTCAAAACATAATTTTTGGAAAGTTTGAG-GGTTAAATTTAAATTTTT
1 TTTTGGAAAGTTTAGGGGTCAAAACATAATTTTTGGAAAGTTTGAGATG-AAAACTT-AATTTTT
* * * **
59169 -GAAAGT-TTAAGGGTTAGATTTAAAT
64 GGAAA-TATTAGGGGTCAAAACTAAAT
* * *
59194 TTTTGAAAAGTTTAGGGGTCAAATC-TATATTTTTGGATAGTTT
1 TTTTGGAAAGTTTAGGGGTCAAAACATA-ATTTTTGGAAAGTTT
59237 AGGGGGCCAA
Statistics
Matches: 177, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
87 2 0.01
88 61 0.34
89 92 0.52
90 22 0.12
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (89 bp):
TTTTGGAAAGTTTAGGGGTCAAAACATAATTTTTGGAAAGTTTGAGATGAAAACTTAATTTTTGG
AAATATTAGGGGTCAAAACTAAAT
Found at i:62342 original size:23 final size:22
Alignment explanation
Indices: 62307--62349 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
62297 AAATATTTCA
*
62307 TTAAATAATTTGGGTTGAATTAC
1 TTAAATAAATTGGGTT-AATTAC
*
62330 TTAATTAAATTGGGTTAATT
1 TTAAATAAATTGGGTTAATT
62350 TTATTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TTAAATAAATTGGGTTAATTAC
Found at i:74772 original size:15 final size:16
Alignment explanation
Indices: 74752--74785 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
74742 TAATTAATAA
*
74752 TATTTA-TATATTTTT
1 TATTTATTAAATTTTT
74767 TATTTATTAAATTTTT
1 TATTTATTAAATTTTT
74783 TAT
1 TAT
74786 ATAGTCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTATTAAATTTTT
Found at i:76299 original size:13 final size:13
Alignment explanation
Indices: 76268--76333 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
76258 CTTAAACCAA
*
76268 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
* *
76281 ATTTTTCAAAATC
1 ACTTTTCAAAAGC
*
76294 ACTTTTCCAAAGC
1 ACTTTTCAAAAGC
*
76307 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
*
76320 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
76333 A
1 A
76334 ATGCTAAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:79938 original size:3 final size:3
Alignment explanation
Indices: 79930--79983 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
79920 ACAGAAAGGT
*
79930 AGA AGA AGA ACA AGGTA AG- AGA AGA AGA AGA AGA AGA AGA AGA TAGA
1 AGA AGA AGA AGA A-G-A AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA
79977 AGA AGA A
1 AGA AGA A
79984 ACAAATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 4 0.09
5 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.31, T:0.04
Consensus pattern (3 bp):
AGA
Found at i:79944 original size:16 final size:16
Alignment explanation
Indices: 79925--79983 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
79915 TAAAGACAGA
*
79925 AAGGTAGAAGAAGAAC
1 AAGGTAGAAGAAGAAG
79941 AAGGT--AAG-AGAAG
1 AAGGTAGAAGAAGAAG
*
79954 AA-GAAGAAGAAGAAG
1 AAGGTAGAAGAAGAAG
*
79969 AAGATAGAAGAAGAA
1 AAGGTAGAAGAAGAA
79984 ACAAATACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 1 0.03
13 6 0.17
14 6 0.17
15 7 0.20
16 15 0.43
ACGTcount: A:0.61, C:0.02, G:0.32, T:0.05
Consensus pattern (16 bp):
AAGGTAGAAGAAGAAG
Found at i:80872 original size:13 final size:13
Alignment explanation
Indices: 80854--80878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80844 TGAATATAAA
80854 ATGCTAAAAATGC
1 ATGCTAAAAATGC
80867 ATGCTAAAAATG
1 ATGCTAAAAATG
80879 ATATAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:81234 original size:16 final size:16
Alignment explanation
Indices: 81200--81241 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
81190 TATAAACATA
81200 TTTTTTTTCTTTTCCC
1 TTTTTTTTCTTTTCCC
* *
81216 TTTTTATTTCTTTTTCT
1 TTTTT-TTTCTTTTCCC
81233 TTTTTTTTC
1 TTTTTTTTC
81242 AACTATGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCTTTTCCC
Found at i:82207 original size:15 final size:16
Alignment explanation
Indices: 82178--82208 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
82168 ACAAAAATTC
82178 TTCCTTCTCTCCTTTT
1 TTCCTTCTCTCCTTTT
82194 TTCCTTCT-TCCTTTT
1 TTCCTTCTCTCCTTTT
82209 CCTCTTCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCCTTCTCTCCTTTT
Found at i:93195 original size:26 final size:27
Alignment explanation
Indices: 93165--93231 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
93155 CTCAAACCAA
* *
93165 ACTTTTCAAAAGTAC-TTTTCAAAATC
1 ACTTTTCAAAAGCACTTTTTCAAAAGC
* *
93191 ACTTTTCCAAAGCACTTTTTTAAAAGC
1 ACTTTTCAAAAGCACTTTTTCAAAAGC
*
93218 ACTTCTCAAAAGCA
1 ACTTTTCAAAAGCA
93232 ATGCTAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (27 bp):
ACTTTTCAAAAGCACTTTTTCAAAAGC
Found at i:93210 original size:14 final size:13
Alignment explanation
Indices: 93165--93231 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
93155 CTCAAACCAA
*
93165 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
93178 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
*
93191 ACTTTTCCAAAGC
1 ACTTTTCAAAAGC
*
93204 ACTTTTTTAAAAGC
1 AC-TTTTCAAAAGC
*
93218 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
93231 A
1 A
93232 ATGCTAAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
13 34 0.76
14 11 0.24
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:98236 original size:24 final size:22
Alignment explanation
Indices: 98207--98266 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
98197 AAGAAGATCG
98207 AAGAAGAAACAAATACATGCTAAA
1 AAGAAGAAA-AAA-ACATGCTAAA
* *
98231 AAGAAGAGAAAAGCATGCTAAA
1 AAGAAGAAAAAAACATGCTAAA
*
98253 AAGCAGAGAAAAAA
1 AAGAAGA-AAAAAA
98267 TGTAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 15 0.50
23 7 0.23
24 8 0.27
ACGTcount: A:0.63, C:0.10, G:0.18, T:0.08
Consensus pattern (22 bp):
AAGAAGAAAAAAACATGCTAAA
Found at i:98250 original size:22 final size:22
Alignment explanation
Indices: 98222--98264 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
98212 GAAACAAATA
98222 CATGCTAAAAAGAAGAGAAAAG
1 CATGCTAAAAAGAAGAGAAAAG
*
98244 CATGCTAAAAAGCAGAGAAAA
1 CATGCTAAAAAGAAGAGAAAA
98265 AATGTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.12, G:0.21, T:0.09
Consensus pattern (22 bp):
CATGCTAAAAAGAAGAGAAAAG
Found at i:99174 original size:28 final size:28
Alignment explanation
Indices: 99134--99192 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
99124 AATTATACTT
99134 TAAATAAGAAGAAATTAATGGTATTTTC
1 TAAATAAGAAGAAATTAATGGTATTTTC
99162 TAAATAAGAAGAAATTAATGGTATTTTC
1 TAAATAAGAAGAAATTAATGGTATTTTC
99190 TAA
1 TAA
99193 TGCTATCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (28 bp):
TAAATAAGAAGAAATTAATGGTATTTTC
Found at i:99494 original size:17 final size:16
Alignment explanation
Indices: 99459--99498 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
99449 ATAAACATAA
99459 TTTTTTTCTTTTCCCT
1 TTTTTTTCTTTTCCCT
*
99475 TTTTCTTTCTTTT-TCT
1 TTTT-TTTCTTTTCCCT
99491 TTTTTTTC
1 TTTTTTTC
99499 GACTGTGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTTTTCCCT
Found at i:100473 original size:16 final size:17
Alignment explanation
Indices: 100433--100488 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
100423 GCGACAAAAA
100433 TTTCTTCCTTCTCTCCT
1 TTTCTTCCTTCTCTCCT
100450 TTT-TTCCTTCT-TCCT
1 TTTCTTCCTTCTCTCCT
* *
100465 TTTCCTCCTCCTCCTCCT
1 TTTCTTCCTTCT-CTCCT
*
100483 CTTCTT
1 TTTCTT
100489 TCTCTTCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 7 0.22
16 14 0.44
17 3 0.09
18 8 0.25
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCTTCCTTCTCTCCT
Found at i:109126 original size:27 final size:27
Alignment explanation
Indices: 109093--109156 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
109083 TGACCAATTA
109093 ACCATTGACCCGACTTGTTAACCATTG
1 ACCATTGACCCGACTTGTTAACCATTG
109120 ACCATTGACCCGACTTGTTAACCATTG
1 ACCATTGACCCGACTTGTTAACCATTG
109147 ACCATTGACC
1 ACCATTGACC
109157 AATTGACTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (27 bp):
ACCATTGACCCGACTTGTTAACCATTG
Found at i:110207 original size:13 final size:13
Alignment explanation
Indices: 110191--110215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110181 ATTTATAGAC
110191 TTATTTTATTTTA
1 TTATTTTATTTTA
110204 TTATTTTATTTT
1 TTATTTTATTTT
110216 GAAATTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:117551 original size:18 final size:18
Alignment explanation
Indices: 117526--117586 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
117516 AATAGTATAA
117526 TGGCTCGTTGAGCAATAC
1 TGGCTCGTTGAGCAATAC
* * *
117544 TAGCTCGTAAGAGCAATAT
1 TGGCTCGT-TGAGCAATAC
117563 TGGCTCGTTGAGCAATAC
1 TGGCTCGTTGAGCAATAC
117581 TGGCTC
1 TGGCTC
117587 ATAAGAGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (18 bp):
TGGCTCGTTGAGCAATAC
Found at i:117559 original size:19 final size:19
Alignment explanation
Indices: 117526--117598 Score: 78
Period size: 18 Copynumber: 3.9 Consensus size: 19
117516 AATAGTATAA
*
117526 TGGCTCGT-TGAGCAATAC
1 TGGCTCGTAAGAGCAATAC
* *
117544 TAGCTCGTAAGAGCAATAT
1 TGGCTCGTAAGAGCAATAC
*
117563 TGGCTCGT-TGAGCAATAC
1 TGGCTCGTAAGAGCAATAC
* *
117581 TGGCTCATAAGAGAAATA
1 TGGCTCGTAAGAGCAATA
117599 TTGGATAGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
18 22 0.50
19 22 0.50
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (19 bp):
TGGCTCGTAAGAGCAATAC
Found at i:117576 original size:37 final size:37
Alignment explanation
Indices: 117526--117602 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
117516 AATAGTATAA
* *
117526 TGGCTCGTTGAGCAATACTAGCTCGTAAGAGCAATAT
1 TGGCTCGTTGAGCAATACTAGCTCATAAGAGAAATAT
*
117563 TGGCTCGTTGAGCAATACTGGCTCATAAGAGAAATAT
1 TGGCTCGTTGAGCAATACTAGCTCATAAGAGAAATAT
117600 TGG
1 TGG
117603 ATAGCAAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (37 bp):
TGGCTCGTTGAGCAATACTAGCTCATAAGAGAAATAT
Found at i:118316 original size:21 final size:21
Alignment explanation
Indices: 118288--118404 Score: 125
Period size: 21 Copynumber: 5.6 Consensus size: 21
118278 AGAATTTTTA
118288 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAGTAAGACTT
*
118309 GTTTCGGTAGAAG--AGTCACTT
1 GTATCGGTAGAAGTAAG--ACTT
118330 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAGTAAGACTT
*
118351 GTTTCGGTAGAAG--AGTCACTT
1 GTATCGGTAGAAGTAAG--ACTT
* **
118372 GTATCGGTAGAACTATCACTT
1 GTATCGGTAGAAGTAAGACTT
118393 GTATCGGTAGAA
1 GTATCGGTAGAA
118405 ATTTGTACTA
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
19 4 0.05
21 75 0.93
23 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTAAGACTT
Found at i:118335 original size:42 final size:42
Alignment explanation
Indices: 118288--118404 Score: 198
Period size: 42 Copynumber: 2.8 Consensus size: 42
118278 AGAATTTTTA
118288 GTATCGGTAGAAGTAAGACTTGTTTCGGTAGAAGAGTCACTT
1 GTATCGGTAGAAGTAAGACTTGTTTCGGTAGAAGAGTCACTT
118330 GTATCGGTAGAAGTAAGACTTGTTTCGGTAGAAGAGTCACTT
1 GTATCGGTAGAAGTAAGACTTGTTTCGGTAGAAGAGTCACTT
* ** *
118372 GTATCGGTAGAACTATCACTTGTATCGGTAGAA
1 GTATCGGTAGAAGTAAGACTTGTTTCGGTAGAA
118405 ATTTGTACTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (42 bp):
GTATCGGTAGAAGTAAGACTTGTTTCGGTAGAAGAGTCACTT
Found at i:122571 original size:25 final size:23
Alignment explanation
Indices: 122543--122588 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
122533 GTTGAATCCA
122543 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
122568 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
122589 CCCTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:126685 original size:84 final size:84
Alignment explanation
Indices: 126535--126701 Score: 253
Period size: 84 Copynumber: 2.0 Consensus size: 84
126525 GTAGTGATAG
* * * *
126535 ACCTTGTGGTAAAGCATTTAACCACAATTTTGCCTTACTCCTCAATGAAAACAAGAACATCTATA
1 ACCTCGTGGTAAAACATTTAACCACAATTTTGCCTTACTCCTCAACGAAAACAAGAACATCCATA
126600 AGCGTATGACGTCATCAGA
66 AGCGTATGACGTCATCAGA
* * *
126619 ACCTCGTGGTAAAACATTTAACCATAATTTTGCCTTGCTCCTCAACGAAAACAGGAACATCCATA
1 ACCTCGTGGTAAAACATTTAACCACAATTTTGCCTTACTCCTCAACGAAAACAAGAACATCCATA
* *
126684 AGCGTTTGGCGTCATCAG
66 AGCGTATGACGTCATCAG
126702 TAACACCATT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (84 bp):
ACCTCGTGGTAAAACATTTAACCACAATTTTGCCTTACTCCTCAACGAAAACAAGAACATCCATA
AGCGTATGACGTCATCAGA
Found at i:127185 original size:20 final size:20
Alignment explanation
Indices: 127157--127213 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
127147 AAATGGGAAA
127157 AAATT-AAAATATAAAAATT
1 AAATTAAAAATATAAAAATT
127176 AAATTAAAAATATAAATAA-T
1 AAATTAAAAATATAAA-AATT
**
127196 AAAACAAAAATA-AAAAAT
1 AAATTAAAAATATAAAAAT
127214 GACTAAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 21 0.64
21 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATTAAAAATATAAAAATT
Found at i:129468 original size:12 final size:12
Alignment explanation
Indices: 129450--129482 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
129440 CACGAACAAG
129450 CTCGTTTATTGA
1 CTCGTTTATTGA
*
129462 TTCGTTTA-TGA
1 CTCGTTTATTGA
129473 CTCGTTTATT
1 CTCGTTTATT
129483 TATTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:129589 original size:12 final size:12
Alignment explanation
Indices: 129561--129635 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
129551 TTGTTTATTA
*
129561 TTCATTAACATTG
1 TTCATGAACA-TG
129574 TTCATGAACATG
1 TTCATGAACATG
* *
129586 TTCAAT-TATATG
1 TTC-ATGAACATG
129598 TTCATGAACATG
1 TTCATGAACATG
* **
129610 TTCGTTTA-ATG
1 TTCATGAACATG
*
129621 TTCGTGAACATG
1 TTCATGAACATG
129633 TTC
1 TTC
129636 GATTAAGTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
11 11 0.22
12 27 0.55
13 11 0.22
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (12 bp):
TTCATGAACATG
Found at i:129651 original size:23 final size:23
Alignment explanation
Indices: 129572--129641 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
129562 TCATTAACAT
*
129572 TGTTCATGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCGATTA-A
*
129596 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGATTAA
*
129619 TGTTCGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCGATTAA
129642 GTTAAATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 22 0.52
24 20 0.48
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:136607 original size:578 final size:576
Alignment explanation
Indices: 135514--136667 Score: 2218
Period size: 578 Copynumber: 2.0 Consensus size: 576
135504 GATACTATCC
135514 CCTATCTTCTCTTTTAAGCTTACTAACAACTCTACGCCTATTCACCCACTCAATACAATTCCTCT
1 CCTATCTTCTCTTTTAAGCTTACTAACAACTCTACGCCTATTCACCCACTCAATACAATTCCTCT
135579 TGGTCCCAATTAAATCTATAATCACTTTGTGCTGATGTATCCACGTATTAGTGCTAAAAAAGTAA
66 TGGTCCCAATTAAATCTATAATCACTTTGTGCTGATGTATCCACGTATTAGTGCTAAAAAAGTAA
*
135644 CAAGCTTTTATCAATATTAACTAGAGCAGGCAAAAAAAGTGACTTCGAACAATCTGAATTTGAGA
131 CAAGCTTTTATCAATATTAACTAGAGCAGGCAAAAAAAGTGACTCCGAACAATCTGAATTTGAGA
*
135709 AAGTTCGAGCCAATAACAAATCCGAACTCGAAAAAGCTCGAGATAGAGAAAATCTAAGTTTGATG
196 AAGTTCGAGCCAATAACAAATCCGAACTCGAAAAAGCTCGAGATAGAGAAAATCTAAGATTGATG
* *
135774 AGCTTGAAAAGCTTGAGTGTGTAAGAATTTGAGTTCGAGACTAATATGATCGGGACCTTAAGATA
261 AGCTTGAAAAGCCTGAGTGTGTAAGAATTTGAGTTCAAGACTAATATGATCGGGACCTTAAGATA
135839 AATCTAACTAAAAACTCGAATTTATAACTCAACAATCATAATAGACATTGATAATTAATATAATT
326 AATCTAACTAAAAACTCGAATTTATAACTCAACAATCATAATAGACATTGATAATTAATATAATT
135904 TTATGATATTACTTAAAATAAAACTAAAAACAAAAATAAATGATAATTATTTATTTTATAAAAAT
391 TTATGATATTACTTAAAATAAAACTAAAAACAAAAATAAATGATAATTATTTATTTTATAAAAAT
*
135969 GTGTTCATAGGCATTATTTATTTATATTAAAACTTTATTAATAGCAAAAGTAATTAATAATAGTT
456 GTGTTCATAGGCATTATATATTTATATTAAAACTTTATTAATAGCAAAAGTAATTAATAATAGTT
136034 TTTTCTTATTTTGACTAAAATTTATTCTCACTTTTCTTCTCTTAGTTAAACTCTAT
521 TTTTCTTATTTTGACTAAAATTTATTCTCACTTTTCTTCTCTTAGTTAAACTCTAT
136090 CCTATCTTCTCTTTTAAGCTTACTAACAACTCTACGCCTATTCACCCACTCAATACAATTCCTCT
1 CCTATCTTCTCTTTTAAGCTTACTAACAACTCTACGCCTATTCACCCACTCAATACAATTCCTCT
136155 TGGTCCCAATTAAATCTATAATCACTTTGTGCTGATGTATCCACGTATTAGTGCTAAAAAAGTAA
66 TGGTCCCAATTAAATCTATAATCACTTTGTGCTGATGTATCCACGTATTAGTGCTAAAAAAGTAA
136220 CAAGCTTTTATCAATATTAACTAGAGCAGGCAAAAAAAGTTCGACTCCGAACAATCTGAATTTGA
131 CAAGCTTTTATCAATATTAACTAGAGCAGGCAAAAAAAG-T-GACTCCGAACAATCTGAATTTGA
*
136285 GAAAGTTCGAGCCAATAACAAATCCGAACTCGAAAAAGTTCGAGATAGAGAAAATCTAAGATTGA
194 GAAAGTTCGAGCCAATAACAAATCCGAACTCGAAAAAGCTCGAGATAGAGAAAATCTAAGATTGA
136350 TGAGCTTGAAAAGCCTGAGTGTGTAAGAATTTGAGTTCAAGACTAATATGATCGGGACCTTAAGA
259 TGAGCTTGAAAAGCCTGAGTGTGTAAGAATTTGAGTTCAAGACTAATATGATCGGGACCTTAAGA
136415 TAAATCTAACTAAAAACTCGAATTTATAACTCAACAATCATAATAGACATTGATAATTAATATAA
324 TAAATCTAACTAAAAACTCGAATTTATAACTCAACAATCATAATAGACATTGATAATTAATATAA
*
136480 TTTTATGATATTACTTAAAATAAAACTAAGAACAAAAATAAATGATAATTATTTATTTTATAAAA
389 TTTTATGATATTACTTAAAATAAAACTAAAAACAAAAATAAATGATAATTATTTATTTTATAAAA
136545 ATGTGTTCATAGGCATTATATATTTATATTAAAACTTTATTAATAGCAAAAGTAATTAATAATAG
454 ATGTGTTCATAGGCATTATATATTTATATTAAAACTTTATTAATAGCAAAAGTAATTAATAATAG
*
136610 TTTTTTCTTATTTTGACTAAAGTTTATTCTCACTTTTCTTCTCTTAGTTAAACTCTAT
519 TTTTTTCTTATTTTGACTAAAATTTATTCTCACTTTTCTTCTCTTAGTTAAACTCTAT
136668 TTTTTAGTTT
Statistics
Matches: 568, Mismatches: 8, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
576 169 0.30
577 1 0.00
578 398 0.70
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (576 bp):
CCTATCTTCTCTTTTAAGCTTACTAACAACTCTACGCCTATTCACCCACTCAATACAATTCCTCT
TGGTCCCAATTAAATCTATAATCACTTTGTGCTGATGTATCCACGTATTAGTGCTAAAAAAGTAA
CAAGCTTTTATCAATATTAACTAGAGCAGGCAAAAAAAGTGACTCCGAACAATCTGAATTTGAGA
AAGTTCGAGCCAATAACAAATCCGAACTCGAAAAAGCTCGAGATAGAGAAAATCTAAGATTGATG
AGCTTGAAAAGCCTGAGTGTGTAAGAATTTGAGTTCAAGACTAATATGATCGGGACCTTAAGATA
AATCTAACTAAAAACTCGAATTTATAACTCAACAATCATAATAGACATTGATAATTAATATAATT
TTATGATATTACTTAAAATAAAACTAAAAACAAAAATAAATGATAATTATTTATTTTATAAAAAT
GTGTTCATAGGCATTATATATTTATATTAAAACTTTATTAATAGCAAAAGTAATTAATAATAGTT
TTTTCTTATTTTGACTAAAATTTATTCTCACTTTTCTTCTCTTAGTTAAACTCTAT
Found at i:141099 original size:18 final size:18
Alignment explanation
Indices: 141065--141099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
141055 TCCCCATTGT
*
141065 TAAAAATAACAGAGAATG
1 TAAAAATAAAAGAGAATG
*
141083 TAAAAATAAAAGTGAAT
1 TAAAAATAAAAGAGAAT
141100 AAATACTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.14, T:0.20
Consensus pattern (18 bp):
TAAAAATAAAAGAGAATG
Found at i:144216 original size:3 final size:3
Alignment explanation
Indices: 144172--144197 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
144162 GCGTGTTACA
144172 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
144198 TAGGATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:145142 original size:9 final size:9
Alignment explanation
Indices: 145111--145152 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
145101 TAACAATTTA
145111 AAATAAATT
1 AAATAAATT
*
145120 AAA-AAGTT
1 AAATAAATT
145128 -AATAAATT
1 AAATAAATT
145136 AAATAAATT
1 AAATAAATT
145145 AAATAAAT
1 AAATAAAT
145153 AGGGTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 2 0.07
8 8 0.28
9 19 0.66
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
AAATAAATT
Found at i:155229 original size:14 final size:15
Alignment explanation
Indices: 155198--155230 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
155188 AGCTTACGGA
155198 ATGTAATCTTCAAGAT
1 ATGTAATCTT-AAGAT
155214 ATGTAATCTT-AGAT
1 ATGTAATCTTAAGAT
155228 ATG
1 ATG
155231 ATACGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (15 bp):
ATGTAATCTTAAGAT
Found at i:171476 original size:52 final size:51
Alignment explanation
Indices: 171301--171487 Score: 180
Period size: 52 Copynumber: 3.6 Consensus size: 51
171291 TGCATTTTTA
* ** ** * *
171301 ATACTCACGATGACACAGAGTCATCAAAATTTTAATACGTATTGGGAA-TCAT
1 ATACTCACGATGACACATAGTCATCAACCTCATAATCCGTA--AGGAATTCAT
* * *
171353 ATACTCACGATGACACATAATCATCAAACCACATAATCCATAAAGG-ATTCAT
1 ATACTCACGATGACACATAGTCATC-AACCTCATAATCCGT-AAGGAATTCAT
* **
171405 ATACACAAAATGACACATAGTCATCAGACCTCATAATCCGTAAGGAATTCAT
1 ATACTCACGATGACACATAGTCATCA-ACCTCATAATCCGTAAGGAATTCAT
*
171457 ATACTCACGATGACACATAGTTATCGAACCT
1 ATACTCACGATGACACATAGTCATC-AACCT
171488 ATTACATTCA
Statistics
Matches: 109, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
51 6 0.06
52 93 0.85
53 9 0.08
54 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (51 bp):
ATACTCACGATGACACATAGTCATCAACCTCATAATCCGTAAGGAATTCAT
Found at i:174061 original size:189 final size:189
Alignment explanation
Indices: 173681--174273 Score: 645
Period size: 189 Copynumber: 3.1 Consensus size: 189
173671 CATTTCGCTG
* * * * *
173681 CACTCCACTGTAACCTCAGGGACATTAAGATCTGCTACCTGTTTTGACCCACTTCTCTATACCTC
1 CACTCCACTGTAACCTCAAGGACGTTGAGATCTACTACCTGTTTTGACCCACTTCTCTGTACCTC
* * * *
173746 TCCAGCAAGATGAGATTTGAAGTCTAACTCCACTCCACTATAACCTCAAGGACGTTGAGCTCTGC
66 TCCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGC
** * * * * * *
173811 TTTGTTGTTTTAATCTGACCTACTACAACTCAAGGTTATAAGATTTTAGTGCTTCACTC
131 TTCATTATTTCAATCCGACCTACTACAACTCAAGGGTATAAGAATCTAGTGCTTCACTC
* *
173870 CACTCCACTGTAACCTCAAGGACGTTGAGATC-ATCTACCTGTTTTGACCCATTTCTCTGTATCT
1 CACTCCACTGTAACCTCAAGGACGTTGAGATCTA-CTACCTGTTTTGACCCACTTCTCTGTACCT
* * * * *
173934 CTCTAGGAAGATGGGATTTGAAGTCTCACTCCAATCCGCTGTAACCTCAGGGACGTTGATCTCTA
65 CTCCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCT-
* * ** * * ** * *
173999 G-TTCATTATTTCCATCCGATCC-ATTGTAACTTATGGGTATTGGAATCTGGTGCTTTACTC
129 GCTTCATTATTTCAATCCGA-CCTACTACAACTCAAGGGTATAAGAATCTAGTGCTTCACTC
* * * *
174059 CACTCTACTGTAATCTCAAGGACGTTGAGATCTACTATCTGTTTTGACCTACTTCTCTGTACCTC
1 CACTCCACTGTAACCTCAAGGACGTTGAGATCTACTACCTGTTTTGACCCACTTCTCTGTACCTC
* * *
174124 ACCAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACTATAACCTTAGGGACGTTGAGCTCTGC
66 TCCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGC
* * * ** * * *
174189 TTCATTATTTTAATCTGACCCACTGTAACTCAGGGGTATAAG-ATTTTGATGCTTCACTC
131 TTCATTATTTCAATCCGACCTACTACAACTCAAGGGTATAAGAATCTAG-TGCTTCACTC
* * * *
174248 CACTGCATTGTAACCTTAGGGACGTT
1 CACTCCACTGTAACCTCAAGGACGTT
174274 AAGTTCTGCT
Statistics
Matches: 332, Mismatches: 65, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
188 7 0.02
189 321 0.97
190 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (189 bp):
CACTCCACTGTAACCTCAAGGACGTTGAGATCTACTACCTGTTTTGACCCACTTCTCTGTACCTC
TCCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGC
TTCATTATTTCAATCCGACCTACTACAACTCAAGGGTATAAGAATCTAGTGCTTCACTC
Found at i:174249 original size:378 final size:381
Alignment explanation
Indices: 173360--174283 Score: 1103
Period size: 378 Copynumber: 2.4 Consensus size: 381
173350 CTCATAATCT
* * * * * *
173360 CAGGATGACGGGATATTGAAGCTTCACTCCACTCCACTGTAACCTCAGGGACATTGAGCTTTGCT
1 CAGGAAGATGGGAT-TTGAAGTTTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGCT
* * * * *
173425 TTATTATTTTCATCCGACCCATTGTAACTCAGGGGTATAAGATTTTGGTG-TTCACCCCACTCCA
65 TTATTATTTTAATCTGACCCACTGTAACTCAGGGGTATAAGATTTTGATGCTTCACTCCACTCCA
* * *
173489 CTATAACCTCAGGGATGTTGAGATCTGCTACCTGTTTTAACACATTTCTTTGTAAATCACTAGGA
130 CTGTAACCTCAGGGACGTTGAGATCTGCTACCTGTTTTAACACATTTCTCTGTAAATCACTAGGA
* * * * *
173554 AGATGGGATTTGAAGTCTCATTCCACTCTGTTGTAACCTCAGGTATCTTGAGCTCTGCTTCATTA
195 AGATGGGATTTGAAGTCTCACTCCAATCCGCTGTAACCTCAGGGATCTTGAGCTCTGCTTCATTA
* * *
173619 TTTTCATCCGACTCAGTGCAACTTAGGAGTATAGGATTCTGGTGCTTCAGTCCATTTCGCTGCAC
260 TTTCCATCCGACTCAGTGCAACTTAGGAGTATAGGAATCTGGTGCTT-A-T-CA--T--CTCCAC
* * *
173684 TCCACTGTAACCTCAGGGACATTAAGATCTGCTACCTGTTTTGACCCACTTCTCTATACCTCTC
318 TCCACTGTAACCTCAAGGACATTAAGATCTACTACCTGTTTTGACCCACTTCTCTATACCTCAC
* * * * *
173748 CAGCAAGATGAGATTTGAAGTCTAACTCCACTCCACTATAACCTCAAGGACGTTGAGCTCTGCTT
1 CAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGCTT
* * * ** * *
173813 TGTTGTTTTAATCTGACCTACTACAACTCAAGGTTATAAGATTTT-AGTGCTTCACTCCACTCCA
66 TATTATTTTAATCTGACCCACTGTAACTCAGGGGTATAAGATTTTGA-TGCTTCACTCCACTCCA
* * * ** *
173877 CTGTAACCTCAAGGACGTTGAGATCAT-CTACCTGTTTTGACCCATTTCTCTGTATCTCTCTAGG
130 CTGTAACCTCAGGGACGTTGAGATC-TGCTACCTGTTTTAACACATTTCTCTGTAAATCACTAGG
*
173941 AAGATGGGATTTGAAGTCTCACTCCAATCCGCTGTAACCTCAGGGA-CGTTGATCTCTAG-TTCA
194 AAGATGGGATTTGAAGTCTCACTCCAATCCGCTGTAACCTCAGGGATC-TTGAGCTCT-GCTTCA
* * *
174004 TTATTTCCATCCGA-TCCATTGTAACTTATGG-GTATTGGAATCTGGTGCTT-T-A-CTCCACTC
257 TTATTTCCATCCGACT-CAGTGCAACTTA-GGAGTATAGGAATCTGGTGCTTATCATCTCCACTC
* * * * * * *
174064 TACTGTAATCTCAAGGACGTTGAGATCTACTATCTGTTTTGACCTACTTCTCTGTACCTCAC
320 CACTGTAACCTCAAGGACATTAAGATCTACTACCTGTTTTGACCCACTTCTCTATACCTCAC
*
174126 CAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACTATAACCTTAGGGACGTTGAGCTCTGCTT
1 CAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGCTT
* * *
174191 CATTATTTTAATCTGACCCACTGTAACTCAGGGGTATAAGATTTTGATGCTTCACTCCACTGCAT
66 TATTATTTTAATCTGACCCACTGTAACTCAGGGGTATAAGATTTTGATGCTTCACTCCACTCCAC
* * *
174256 TGTAACCTTAGGGACGTTAAGTTCTGCT
131 TGTAACCTCAGGGACGTTGAGATCTGCT
174284 TCATTATTTT
Statistics
Matches: 453, Mismatches: 74, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
377 1 0.00
378 193 0.43
379 1 0.00
383 1 0.00
385 1 0.00
387 83 0.18
388 169 0.37
389 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (381 bp):
CAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACTATAACCTCAGGGACGTTGAGCTCTGCTT
TATTATTTTAATCTGACCCACTGTAACTCAGGGGTATAAGATTTTGATGCTTCACTCCACTCCAC
TGTAACCTCAGGGACGTTGAGATCTGCTACCTGTTTTAACACATTTCTCTGTAAATCACTAGGAA
GATGGGATTTGAAGTCTCACTCCAATCCGCTGTAACCTCAGGGATCTTGAGCTCTGCTTCATTAT
TTCCATCCGACTCAGTGCAACTTAGGAGTATAGGAATCTGGTGCTTATCATCTCCACTCCACTGT
AACCTCAAGGACATTAAGATCTACTACCTGTTTTGACCCACTTCTCTATACCTCAC
Found at i:174262 original size:94 final size:93
Alignment explanation
Indices: 174147--174370 Score: 315
Period size: 94 Copynumber: 2.4 Consensus size: 93
174137 GATTTGAAGT
* *
174147 TTCACTCCACTCCACTATAACCTTAGGGACGTTGAGCTCTGCTTCATTATTTTAATCTGACCCAC
1 TTCACTCCACT-CACTGTAACCTTAGGGACGTTGAGCTCTGCTTCATTATTTTAATCTGACACAC
*
174212 TGTAACTCAGGGGTATAAGA-TTTTGATGC
65 TGCAACTCAGGGGTATAAGATTTTTG-TGC
* * * *
174241 TTCACTCCACTGCATTGTAACCTTAGGGACGTTAAGTTCTGCTTCATTATTTTCATCTGACACAC
1 TTCACTCCACT-CACTGTAACCTTAGGGACGTTGAGCTCTGCTTCATTATTTTAATCTGACACAC
*
174306 TGCAACTCAGGGGTATAGGATTTTTGTGC
65 TGCAACTCAGGGGTATAAGATTTTTGTGC
* *
174335 CTCACTCCACTCTACTGTAACCTTAGGGAAGTTGAG
1 TTCACTCCACTC-ACTGTAACCTTAGGGACGTTGAG
174371 ATATGTTACC
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
93 1 0.01
94 109 0.95
95 5 0.04
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (93 bp):
TTCACTCCACTCACTGTAACCTTAGGGACGTTGAGCTCTGCTTCATTATTTTAATCTGACACACT
GCAACTCAGGGGTATAAGATTTTTGTGC
Found at i:175129 original size:44 final size:43
Alignment explanation
Indices: 175071--175169 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
175061 CTCCCTTTTT
* *
175071 GGGTTTTCAACTTAAAATC-CATTTGGTTTCAAGACGCCCTTTAC
1 GGGTTTTCATCTTAAAATCTC-TTT-GTTTCAAGACACCCTTTAC
** * * *
175115 GGGTTTTCATCTTAACCTCTCTTTTTTTTAAGACACCCTTTGC
1 GGGTTTTCATCTTAAAATCTCTTTGTTTCAAGACACCCTTTAC
175158 GGGTTTTCATCT
1 GGGTTTTCATCT
175170 CGACCCTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 27 0.57
44 19 0.40
45 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (43 bp):
GGGTTTTCATCTTAAAATCTCTTTGTTTCAAGACACCCTTTAC
Found at i:190121 original size:26 final size:26
Alignment explanation
Indices: 190092--190143 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
190082 TCAGATGTGC
* *
190092 CGATAATTTTGGACATGTTCATGCAG
1 CGATAATTCTGGACATGTTAATGCAG
*
190118 CGATAATTCTGTACATGTTAATGCAG
1 CGATAATTCTGGACATGTTAATGCAG
190144 TGACATTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (26 bp):
CGATAATTCTGGACATGTTAATGCAG
Found at i:194545 original size:39 final size:37
Alignment explanation
Indices: 194502--194635 Score: 124
Period size: 39 Copynumber: 3.5 Consensus size: 37
194492 AAACTGATGA
* *
194502 TGACACTATAAACAGCGTGATATTGTACTGAACTGGCAG
1 TGACACTGTAAACA-C-TGATATTGTACTGAACTAGCAG
****
194541 TGACACTGTAAACACTGCAATACAACACTGAACTAGCAG
1 TGACACTGTAAACACTG--ATATTGTACTGAACTAGCAG
* * *
194580 TGACACTGTAAACACCATAATATTGTATTGAGCTAGCAG
1 TGACACTGTAAACA-C-TGATATTGTACTGAACTAGCAG
*
194619 TGACACTCTAAACACTG
1 TGACACTGTAAACACTG
194636 TGTAGCTATG
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 3 0.04
38 2 0.03
39 69 0.91
40 1 0.01
41 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (37 bp):
TGACACTGTAAACACTGATATTGTACTGAACTAGCAG
Found at i:195933 original size:38 final size:37
Alignment explanation
Indices: 195872--195983 Score: 98
Period size: 38 Copynumber: 2.9 Consensus size: 37
195862 GGTTGTACGA
* * * ***
195872 TGTTTATCGAGCTTTATGACTAACAAGCTTTATGTTGG
1 TGTTAATCGAGC-TTATGCCTAACAAGCTATATGCCAG
* *
195910 TGTTAATCGAGCTTAGTGCCTAACAGGCTATGTGCCAG
1 TGTTAATCGAGCTTA-TGCCTAACAAGCTATATGCCAG
* * *
195948 TGTTAATCGGGCTTAATGCCTAGCAAGCTACATGCC
1 TGTTAATCGAGCTT-ATGCCTAACAAGCTATATGCC
195984 GATGTTTATC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
37 3 0.05
38 55 0.93
39 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (37 bp):
TGTTAATCGAGCTTATGCCTAACAAGCTATATGCCAG
Found at i:196054 original size:38 final size:38
Alignment explanation
Indices: 195910--196048 Score: 163
Period size: 38 Copynumber: 3.7 Consensus size: 38
195900 TTTATGTTGG
* *
195910 TGTTAATCGAGCTTAGTGCCTAACAGGCTATGTGCC-A
1 TGTTAATCGGGCTTAGTGCCTAGCAGGCTATGTGCCGA
* * **
195947 GTGTTAATCGGGCTTAATGCCTAGCAAGCTACATGCCGA
1 -TGTTAATCGGGCTTAGTGCCTAGCAGGCTATGTGCCGA
* * * * *
195986 TGTTTATCGGGCTTTGTGCTTAGAAGGCTTTGTGCCGA
1 TGTTAATCGGGCTTAGTGCCTAGCAGGCTATGTGCCGA
196024 TGTTAATCGGGCTTAGTGCCTAGCA
1 TGTTAATCGGGCTTAGTGCCTAGCA
196049 TGCTTTATAC
Statistics
Matches: 81, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 80 0.99
39 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (38 bp):
TGTTAATCGGGCTTAGTGCCTAGCAGGCTATGTGCCGA
Found at i:196076 original size:76 final size:76
Alignment explanation
Indices: 195934--196078 Score: 177
Period size: 76 Copynumber: 1.9 Consensus size: 76
195924 AGTGCCTAAC
* * **
195934 AGGCTATGTGCCAGTGTTAATCGGGCTTAATGCCTAGCAAGCTACATGCCGATGTTTATCGGGCT
1 AGGCTATGTGCCAGTGTTAATCGGGCTTAATGCCTAGCAAGCTACATACCGATGTTTAGCAAGCT
195999 TTGTGCTTAGA
66 TTGTGCTTAGA
* * * **
196010 AGGCTTTGTGCC-GATGTTAATCGGGCTTAGTGCCTAGCATGCTTTATACC-AGTGTTTAGCAAG
1 AGGCTATGTGCCAG-TGTTAATCGGGCTTAATGCCTAGCAAGCTACATACCGA-TGTTTAGCAAG
196073 CTTTGT
64 CTTTGT
196079 CCCAAGCAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
75 2 0.03
76 56 0.97
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (76 bp):
AGGCTATGTGCCAGTGTTAATCGGGCTTAATGCCTAGCAAGCTACATACCGATGTTTAGCAAGCT
TTGTGCTTAGA
Found at i:196102 original size:16 final size:16
Alignment explanation
Indices: 196066--196102 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
196056 TACCAGTGTT
196066 TAGCAAGCTTTGTCCC
1 TAGCAAGCTTTGTCCC
* *
196082 AAGCAAGCTTTGTGCC
1 TAGCAAGCTTTGTCCC
196098 TAGCA
1 TAGCA
196103 GACTTTATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (16 bp):
TAGCAAGCTTTGTCCC
Found at i:196144 original size:38 final size:38
Alignment explanation
Indices: 196085--196167 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
196075 TTGTCCCAAG
**
196085 CAAGCTTTGTGCCTAGCAGACTTTATGCCAATGTTTAT
1 CAAGCTTTGTGCCTAGCAGACTACATGCCAATGTTTAT
* * * * *
196123 CAGGCTTTGTGCGTAGTAGACTACATGTCAGTGTTTAT
1 CAAGCTTTGTGCCTAGCAGACTACATGCCAATGTTTAT
196161 CAAGCTT
1 CAAGCTT
196168 AGCGCTAGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (38 bp):
CAAGCTTTGTGCCTAGCAGACTACATGCCAATGTTTAT
Found at i:196296 original size:20 final size:20
Alignment explanation
Indices: 196271--196308 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
196261 TGATCTTTGA
196271 TTTGATTTGATTTATGAAAC
1 TTTGATTTGATTTATGAAAC
196291 TTTGATTTGATTTATGAA
1 TTTGATTTGATTTATGAA
196309 GAAATTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTGATTTGATTTATGAAAC
Found at i:198260 original size:58 final size:58
Alignment explanation
Indices: 198181--198500 Score: 363
Period size: 58 Copynumber: 5.3 Consensus size: 58
198171 CATTCTTTTA
* * * *
198181 CACA-TTAATCACATTAATCACATGAGTACTTAAGCATTTAACACAACACATATTAAT
1 CACATTTAATCACATTAATCACATGAATATTTAAGCATTTATCACATCACATATTAAT
* * *
198238 CACATTTAATCACATTACTCACATGAATATTTCAGCATTTATCAGATCACATATTAATCACATTT
1 CACATTTAATCACATTAATCACATGAATATTTAAGCATTTATCACATCACATA-T--T---A---
198303 AGT
57 A-T
* * * *
198306 CACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCACGTAGTAAT
1 CACATTTAATCACATTAATCACATGAATATTTAAGCATTTATCACATCACATATTAAT
* * * *
198364 CACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACTTCACGTATTAAT
1 CACATTTAATCACATTAATCACATGAATATTTAAGCATTTATCACATCACATATTAAT
* *
198422 CACATTTAGTCACATTTAATCACATGAATATTTTAGCATTTATCACATCACATATATTAAT
1 CACATTTAATCACA-TTAATCACATGAATATTTAAGCATTTATCACATCAC--ATATTAAT
198483 CACATTTAATCACATTAA
1 CACATTTAATCACATTAA
198501 CATTTAAGCA
Statistics
Matches: 230, Mismatches: 19, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.02
58 111 0.48
59 35 0.15
60 4 0.02
61 21 0.09
62 1 0.00
64 1 0.00
65 1 0.00
67 1 0.00
68 51 0.22
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (58 bp):
CACATTTAATCACATTAATCACATGAATATTTAAGCATTTATCACATCACATATTAAT
Found at i:198310 original size:10 final size:10
Alignment explanation
Indices: 198283--198321 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
198273 CATTTATCAG
198283 ATCACATATTA
1 ATCACAT-TTA
198294 ATCACATTTA
1 ATCACATTTA
*
198304 GTCACATTTA
1 ATCACATTTA
198314 ATCACATT
1 ATCACATT
198322 AGTCACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 19 0.73
11 7 0.27
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (10 bp):
ATCACATTTA
Found at i:198317 original size:68 final size:67
Alignment explanation
Indices: 198227--198498 Score: 301
Period size: 68 Copynumber: 4.2 Consensus size: 67
198217 TTTAACACAA
* * *
198227 CACATATTAATCACATTTAATCACATTACTCACATGAATATTTCAGCATTTATCAGATCACATAT
1 CACAT-TTAGTCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCAC-TAT
198292 TAAT
64 TAAT
*
198296 CACATTTAGTCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCAC--GTA
1 CACATTTAGTCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCACTATTA
*
198359 GT
66 AT
*
198361 ---A---A-TCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACTTCACGTATT
1 CACATTTAGTCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCAC-TATT
198419 AAT
65 AAT
198422 CACATTTAGTCACATTTAATCACA-T-G--A-AT--AT-TTT-AGCATTTATCACATCACATATA
1 CACATTTAGTCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCAC---TA
198478 TTAAT
63 TTAAT
*
198483 CACATTTAATCACATT
1 CACATTTAGTCACATT
198499 AACATTTAAG
Statistics
Matches: 180, Mismatches: 11, Indels: 32
0.81 0.05 0.14
Matches are distributed among these distances:
58 50 0.28
59 17 0.09
60 3 0.02
61 27 0.15
62 1 0.01
63 2 0.01
64 2 0.01
65 3 0.02
66 1 0.01
67 2 0.01
68 67 0.37
69 5 0.03
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (67 bp):
CACATTTAGTCACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCACTATTA
AT
Found at i:198325 original size:19 final size:21
Alignment explanation
Indices: 198284--198329 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
198274 ATTTATCAGA
198284 TCACATATTAATCACATTTAG
1 TCACATATTAATCACATTTAG
198305 TCACAT-TTAATCACA-TTAG
1 TCACATATTAATCACATTTAG
198324 TCACAT
1 TCACAT
198330 GAATATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 10 0.40
20 9 0.36
21 6 0.24
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (21 bp):
TCACATATTAATCACATTTAG
Found at i:198344 original size:23 final size:22
Alignment explanation
Indices: 198247--198352 Score: 69
Period size: 23 Copynumber: 4.7 Consensus size: 22
198237 TCACATTTAA
198247 TCACA-TTACTCACATGAATATT
1 TCACATTTA-TCACATGAATATT
* *
198269 TCAGCATTTATCAGATCACATATT
1 TCA-CATTTATCACATGA-ATATT
* *
198293 AATCACATTTAGTCACAT--TTA-A
1 --TCACATTTA-TCACATGAATATT
198315 TCACA-TTAGTCACATGAATATT
1 TCACATTTA-TCACATGAATATT
198337 TCAGCATTTATCACAT
1 TCA-CATTTATCACAT
198353 CACGTAGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 21
0.70 0.07 0.22
Matches are distributed among these distances:
19 10 0.15
20 5 0.08
21 2 0.03
22 6 0.09
23 18 0.27
24 11 0.17
25 6 0.09
26 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.37
Consensus pattern (22 bp):
TCACATTTATCACATGAATATT
Found at i:198419 original size:126 final size:125
Alignment explanation
Indices: 198181--198499 Score: 440
Period size: 126 Copynumber: 2.6 Consensus size: 125
198171 CATTCTTTTA
* * * * *
198181 CACA-TTAATCACATTAATCACATGAGTACTTAAGCATTTAACACAACACATATTAATCACATTT
1 CACATTTAATCACATTAGTCACATGAATA-TTTAGCATTTATCACATCACATATTAATCACATTT
*
198245 AATCACATTACTCACATGAATATTTCAGCATTTATCAGATCACATATTAATCACATTTAGT
65 AATCACATTACTCACATGAATATTTCAGCATTTATCACATCACATATTAATCACATTTAGT
* *
198306 CACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCACGTAGTAATCACATTT
1 CACATTTAATCACATTAGTCACATGAATATTT-AGCATTTATCACATCACATATTAATCACATTT
* * *
198371 AATCACATTAGTCACATGAATATTTCAGCATTTATCACTTCACGTATTAATCACATTTAGT
65 AATCACATTACTCACATGAATATTTCAGCATTTATCACATCACATATTAATCACATTTAGT
198432 CACATTTAATCACA-T-G--A-AT--AT-TTTAGCATTTATCACATCACATATATTAATCACATT
1 CACATTTAATCACATTAGTCACATGAATATTTAGCATTTATCACATCAC--ATATTAATCACATT
198489 TAATCACATTA
64 TAATCACATTA
198500 ACATTTAAGC
Statistics
Matches: 177, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
117 17 0.10
118 3 0.02
119 25 0.14
121 2 0.01
122 1 0.01
124 1 0.01
125 7 0.04
126 121 0.68
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (125 bp):
CACATTTAATCACATTAGTCACATGAATATTTAGCATTTATCACATCACATATTAATCACATTTA
ATCACATTACTCACATGAATATTTCAGCATTTATCACATCACATATTAATCACATTTAGT
Found at i:198436 original size:10 final size:10
Alignment explanation
Indices: 198417--198446 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
198407 ACTTCACGTA
198417 TTAATCACAT
1 TTAATCACAT
*
198427 TTAGTCACAT
1 TTAATCACAT
198437 TTAATCACAT
1 TTAATCACAT
198447 GAATATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (10 bp):
TTAATCACAT
Found at i:198494 original size:28 final size:24
Alignment explanation
Indices: 198431--198497 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
198421 TCACATTTAG
*
198431 TCACATTTAATCACATGAATATTT
1 TCACATTTAATCACATCAATATTT
198455 T-AGCATTT-ATCACATCACATATATT
1 TCA-CATTTAATCACATCA-ATAT-TT
198480 AATCACATTTAATCACAT
1 --TCACATTTAATCACAT
198498 TAACATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
23 9 0.26
24 10 0.29
25 2 0.06
27 6 0.17
28 8 0.23
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (24 bp):
TCACATTTAATCACATCAATATTT
Found at i:198540 original size:117 final size:116
Alignment explanation
Indices: 198181--198544 Score: 261
Period size: 126 Copynumber: 3.1 Consensus size: 116
198171 CATTCTTTTA
* * * * * *
198181 CACA-TTAATCACATTAATCACATGAGTACTTAAGCATTTAACACAACACATATTAATCACATTT
1 CACATTTAATCACATTAATCACATGAATATTTCAGCATTTATCACATCACATAGTAATCACATTT
** * * ** * * * *
198245 AATCACATTACTCACATGAATATTTCAGCATTTATCAGATCACATATTAATCACATTTAGT
66 AATCACATTAGACACAAGAACAAATCAGCA--T-T-A-ATCAC-T-TCAA--GCA-TAAAT
* *
198306 CACATTTAATCACATTAGTCACATGAATATTTCAGCATTTATCACATCACGTAGTAATCACATTT
1 CACATTTAATCACATTAATCACATGAATATTTCAGCATTTATCACATCACATAGTAATCACATTT
* * * ** * * * *
198371 AATCACATTAGTCACATGAATATTTCAGCATTTATCACTTCACGTATTAAT
66 AATCACATTAGACACAAGAACAAATCAGCATTAATCACTTCAAGCATAAAT
* * *
198422 CACATTTAGTCACATTTAATCACATGAATATTTTAGCATTTATCACATCACATATATTAATCACA
1 CACATTTAATCACA-TTAATCACATGAATATTTCAGCATTTATCACATCAC--ATAGTAATCACA
* * *
198487 TTTAATCACATTA-ACATTTAAGCACAAATCA-CATTAAT-A-TTTAAGCATAAAT
63 TTTAATCACATTAGACA--CAAGAACAAATCAGCATTAATCACTTCAAGCATAAAT
198539 CACATT
1 CACATT
198545 AATTTTTAAA
Statistics
Matches: 201, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
116 17 0.08
117 50 0.25
118 3 0.01
119 31 0.15
120 8 0.04
121 5 0.02
123 1 0.00
124 1 0.00
125 4 0.02
126 81 0.40
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (116 bp):
CACATTTAATCACATTAATCACATGAATATTTCAGCATTTATCACATCACATAGTAATCACATTT
AATCACATTAGACACAAGAACAAATCAGCATTAATCACTTCAAGCATAAAT
Found at i:198597 original size:23 final size:23
Alignment explanation
Indices: 198490--198598 Score: 128
Period size: 23 Copynumber: 4.7 Consensus size: 23
198480 AATCACATTT
* *
198490 AATCACATTAACATTTAAGCACA
1 AATCACATTAATATTTAAGCATA
198513 AATCACATTAATATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
* **
198536 AATCACATTAATTTTTAAATATA
1 AATCACATTAATATTTAAGCATA
* * *
198559 ATTCATATTAACATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
**
198582 AATCACAACAATATTTA
1 AATCACATTAATATTTA
198599 GCACATTTAA
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.35
Consensus pattern (23 bp):
AATCACATTAATATTTAAGCATA
Found at i:198787 original size:66 final size:67
Alignment explanation
Indices: 198676--198813 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 67
198666 GATACACATT
* * * *
198676 TCTCCAAACACACCAAAAGACTCATAGAGTCGAACATATCCC-AAAAGTGAAGCATATAA-CTGA
1 TCTCCAAACACACCAAAAGACTCACAGAGCCAAACATATCCCAAAAAGTGAAGCATA-AAGCTAA
198739 CAC
65 CAC
* * * **
198742 TCTCCAAACACACCAAATGACTCACAGAGCCAAATATTTTTCAAAAAGTGAAGCATAAAGCTAAC
1 TCTCCAAACACACCAAAAGACTCACAGAGCCAAACATATCCCAAAAAGTGAAGCATAAAGCTAAC
198807 AC
66 AC
198809 TCTCC
1 TCTCC
198814 TTATTTCCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
66 36 0.59
67 25 0.41
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.19
Consensus pattern (67 bp):
TCTCCAAACACACCAAAAGACTCACAGAGCCAAACATATCCCAAAAAGTGAAGCATAAAGCTAAC
AC
Found at i:199107 original size:36 final size:36
Alignment explanation
Indices: 199061--199172 Score: 170
Period size: 36 Copynumber: 3.1 Consensus size: 36
199051 TTAACACAAT
* *
199061 ATATTCACTGTCACATGGCATGAATAACACACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
**
199097 ATATTTACTGTCTTATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
199133 ATATTTAATGTCACATGGCATGAATAACATTCCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
199169 ATAT
1 ATAT
199173 CCACTTTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (36 bp):
ATATTTACTGTCACATGGCATGAATAACATACCCAC
Found at i:215857 original size:12 final size:12
Alignment explanation
Indices: 215836--215865 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
215826 AGGCAACTCC
*
215836 CACTTTCTTTGG
1 CACTTCCTTTGG
215848 CACTTCCTTTGG
1 CACTTCCTTTGG
215860 CACTTC
1 CACTTC
215866 ATTGGTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.33, G:0.13, T:0.43
Consensus pattern (12 bp):
CACTTCCTTTGG
Found at i:219297 original size:17 final size:18
Alignment explanation
Indices: 219255--219298 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
219245 ACTAAACAAA
*
219255 TTTTATTTTTATTTAATT
1 TTTTATTATTATTTAATT
* *
219273 TATAATTATT-TTTAATT
1 TTTTATTATTATTTAATT
219290 TTTTATTAT
1 TTTTATTAT
219299 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATTATTATTTAATT
Found at i:219517 original size:26 final size:27
Alignment explanation
Indices: 219488--219539 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
219478 TTTATTTTAT
*
219488 CAAAATGAAT-TTAAAAACTCAAAATC
1 CAAAATGAATATAAAAAACTCAAAATC
* *
219514 CAAAATTAATATAAAAAACTGAAAAT
1 CAAAATGAATATAAAAAACTCAAAAT
219540 AAAACCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.62, C:0.12, G:0.04, T:0.23
Consensus pattern (27 bp):
CAAAATGAATATAAAAAACTCAAAATC
Found at i:222133 original size:20 final size:20
Alignment explanation
Indices: 222093--222137 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
222083 AATAAAATCT
* **
222093 ATAAATATTATTAAATTTTA
1 ATAAAAATTATTAAAAATTA
222113 ATAAAAATTATTAAAAATTA
1 ATAAAAATTATTAAAAATTA
222133 A-AAAA
1 ATAAAA
222138 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAAATTATTAAAAATTA
Found at i:222185 original size:31 final size:31
Alignment explanation
Indices: 222150--222237 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
222140 TAAAAAATCG
*
222150 TAAAAAT-ATATAAAAAAATTGTAAAATTTTA
1 TAAAAATCATA-AAAAAAATTATAAAATTTTA
*
222181 TAAAAATCGTAAAAAAAATTATAAAATTTTA
1 TAAAAATCATAAAAAAAATTATAAAATTTTA
* *
222212 T-AAAGTCGT-AAAAAAATATATAAAAT
1 TAAAAATCATAAAAAAAAT-TATAAAAT
222238 ATAAAGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 8 0.15
30 15 0.29
31 27 0.52
32 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (31 bp):
TAAAAATCATAAAAAAAATTATAAAATTTTA
Found at i:222194 original size:30 final size:29
Alignment explanation
Indices: 222160--222237 Score: 111
Period size: 31 Copynumber: 2.6 Consensus size: 29
222150 TAAAAATATA
*
222160 TAAAAAAATTGTAAAATTTTATAAAAATCG
1 TAAAAAAATTATAAAATTTTAT-AAAATCG
*
222190 TAAAAAAAATTATAAAATTTTATAAAGTCG
1 T-AAAAAAATTATAAAATTTTATAAAATCG
222220 TAAAAAAATATATAAAAT
1 TAAAAAAAT-TATAAAAT
222238 ATAAAGAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 8 0.18
30 16 0.36
31 20 0.45
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (29 bp):
TAAAAAAATTATAAAATTTTATAAAATCG
Found at i:222206 original size:10 final size:10
Alignment explanation
Indices: 222115--222206 Score: 50
Period size: 10 Copynumber: 9.3 Consensus size: 10
222105 AAATTTTAAT
*
222115 AAAAATTATT
1 AAAAATTATA
222125 AAAAA-T-TA
1 AAAAATTATA
222133 AAAAA-TATA
1 AAAAATTATA
**
222142 AAAAATCGT-
1 AAAAATTATA
222151 AAAAATATATAA
1 AAAAAT-TAT-A
*
222163 AAAAATTGTA
1 AAAAATTATA
**
222173 AAATTTTAT-
1 AAAAATTATA
*
222182 AAAAATCGTAAA
1 AAAAAT--TATA
222194 AAAAATTATA
1 AAAAATTATA
222204 AAA
1 AAA
222207 TTTTATAAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.11
9 18 0.30
10 20 0.33
11 4 0.07
12 12 0.20
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:225952 original size:18 final size:18
Alignment explanation
Indices: 225931--225967 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
225921 GAAAAGCATG
*
225931 AAAATTATAAAAAAATAA
1 AAAATTACAAAAAAATAA
*
225949 AAAATTACAAATAAATAA
1 AAAATTACAAAAAAATAA
225967 A
1 A
225968 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATTACAAAAAAATAA
Found at i:226087 original size:19 final size:19
Alignment explanation
Indices: 226065--226109 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
226055 TTTAAACAAT
* * *
226065 TAAAAATTATAACAATTTA
1 TAAAAATAAAAACAAATTA
*
226084 TAAAAATAAAAAGAAATTA
1 TAAAAATAAAAACAAATTA
226103 TAAAAAT
1 TAAAAAT
226110 CATATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAATAAAAACAAATTA
Found at i:226250 original size:16 final size:16
Alignment explanation
Indices: 226229--226260 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
226219 TCACTAAGCT
226229 GAGATTATTTTATTAG
1 GAGATTATTTTATTAG
226245 GAGATTATTTTATTAG
1 GAGATTATTTTATTAG
226261 TCAGTCAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
GAGATTATTTTATTAG
Found at i:229248 original size:26 final size:27
Alignment explanation
Indices: 229209--229273 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
229199 AAATTTTAAG
229209 TTTTAAAATAATTTTATCTTTTA-AATT
1 TTTTAAAATAATTTT-TCTTTTATAATT
* *
229236 TTTTAGAAT-ATTTTTTTTTTATAA-T
1 TTTTAAAATAATTTTTCTTTTATAATT
229261 TTTTAAAA-AATTT
1 TTTTAAAATAATTT
229274 AAACAAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 18 0.55
26 7 0.21
27 8 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAATTTTTCTTTTATAATT
Found at i:229656 original size:29 final size:29
Alignment explanation
Indices: 229614--229716 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
229604 GCACTTAAAA
229614 GGCAAAACTATAAAATTTGAAAAACTAGT
1 GGCAAAACTATAAAATTTGAAAAACTAGT
* * * *
229643 GGCAAAATTGTAAAATCTGGAAAAA-TACT
1 GGCAAAACTATAAAAT-TTGAAAAACTAGT
* * * * *
229672 AGCAAAATTGTAAAATCT-AGAAAACCAGT
1 GGCAAAACTATAAAATTTGA-AAAACTAGT
229701 GGCAAAACTATAAAAT
1 GGCAAAACTATAAAAT
229717 AGTGGCAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
27 1 0.02
28 4 0.07
29 47 0.80
30 7 0.12
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (29 bp):
GGCAAAACTATAAAATTTGAAAAACTAGT
Found at i:230728 original size:34 final size:34
Alignment explanation
Indices: 230679--230881 Score: 140
Period size: 34 Copynumber: 6.1 Consensus size: 34
230669 TATCTACCGT
*
230679 TCAAGAATTTCAATTCATTCATATATTATAAACAA
1 TCAA-AATTTCAATTCATTCATATATCATAAACAA
* * *
230714 TCAATAATTT-AATTCATTCATGTATCACAAAGAA
1 TCAA-AATTTCAATTCATTCATATATCATAAACAA
* *
230748 TC-ACA----AATTCATTCATATATCATAATCAA
1 TCAAAATTTCAATTCATTCATATATCATAAACAA
* ** * *
230777 TAAAAAAGT-AATCCATTCATATATCATAAATAGA
1 TCAAAATTTCAATTCATTCATATATCATAAACA-A
* * * *
230811 --AAGATTTTCAATTGATCCATGTATCATAAACAA
1 TCAA-AATTTCAATTCATTCATATATCATAAACAA
230844 TCAAAGATTTTCAATTCATTCATATAT--TAAACAA
1 TCAAA-A-TTTCAATTCATTCATATATCATAAACAA
230878 TCAA
1 TCAA
230882 GTAAATAAAA
Statistics
Matches: 130, Mismatches: 27, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
29 21 0.16
30 2 0.02
32 3 0.02
33 24 0.18
34 53 0.41
35 11 0.08
36 16 0.12
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.34
Consensus pattern (34 bp):
TCAAAATTTCAATTCATTCATATATCATAAACAA
Found at i:230851 original size:36 final size:34
Alignment explanation
Indices: 230810--230881 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 34
230800 TCATAAATAG
* *
230810 AAAGATTTTCAATTGATCCATGTATCATAAACAATC
1 AAAGATTTTCAATTCATCCATATAT--TAAACAATC
*
230846 AAAGATTTTCAATTCATTCATATATTAAACAATC
1 AAAGATTTTCAATTCATCCATATATTAAACAATC
230880 AA
1 AA
230882 GTAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 11 0.33
36 22 0.67
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (34 bp):
AAAGATTTTCAATTCATCCATATATTAAACAATC
Found at i:233321 original size:30 final size:30
Alignment explanation
Indices: 233252--233457 Score: 195
Period size: 29 Copynumber: 7.0 Consensus size: 30
233242 AAGAATTTGG
233252 GGTTAAAATGTGATTTTGGAAAAGTTTAG-
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGA
* * *
233281 GGTGAAAATGTGATTTTGGAAAGGTTTATA
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGA
* ** *
233311 GGTCAAAATGTGATTTTGGGGAGGTTT-GA
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGA
* * *
233340 CGTTAAAATGTGATTTTTGAAAAGTTTAGG
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGA
* * *
233370 GGTTAAAATGTAATTTT-AAAGAAGTTT-GG
1 GGTTAAAATGTGATTTTGGAA-AAGTTTAGA
* * * * *
233399 GGTCAAAATGTAATTTTAGAAAAATTTTGA
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGA
* *
233429 GGTTAAAATGTAATTTTGGGAAAGTTTAG
1 GGTTAAAATGTGATTTTGGAAAAGTTTAG
233458 GAGCCAAAAT
Statistics
Matches: 146, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
29 73 0.50
30 73 0.50
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.37
Consensus pattern (30 bp):
GGTTAAAATGTGATTTTGGAAAAGTTTAGA
Found at i:233322 original size:59 final size:59
Alignment explanation
Indices: 233252--233569 Score: 227
Period size: 59 Copynumber: 5.4 Consensus size: 59
233242 AAGAATTTGG
* * * *
233252 GGTTAAAATGTGATTTTGGAAAAGTTTAGGGTGAAAATGTGATTTTGGAAAGGTTTATA
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTATA
* * ** * * * * **
233311 GGTCAAAATGTGATTTTGGGGAGGTTT-GACGTTAAAATGTGATTTTTGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG-GGTCAAAATGTGATTTTAGAAAAGTTTATA
* * * *
233370 GGTTAAAATGTAATTTT-AAAGAAGTTTGGGGTCAAAATGTAATTTTAGAAAAATTT-TGA
1 GGTTAAAATGTAATTTTGGAA-AAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTAT-A
* * * *
233429 GGTTAAAATGTAATTTTGGGAAAGTTTAGGAGCCAAAATGTAATTTTA-AAAAATTT-TGA
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG-GTCAAAATGTGATTTTAGAAAAGTTTAT-A
* ** ** * * * **
233488 GGGTCAAAATACAATTTAAGAAAAGTTTGAGGTTCAAAATGTAATTTTAAAAAAAATTA-A
1 -GGTTAAAATGTAATTTTGGAAAAGTTT-AGGGTCAAAATGTGATTTTAGAAAAGTTTATA
233548 GG-TAAAATTGTAATTTTGGAAA
1 GGTTAAAA-TGTAATTTTGGAAA
233570 TAAAAAGGGG
Statistics
Matches: 207, Mismatches: 41, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
58 5 0.02
59 137 0.66
60 55 0.27
61 10 0.05
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.36
Consensus pattern (59 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTTATA
Found at i:233467 original size:30 final size:30
Alignment explanation
Indices: 233256--233569 Score: 173
Period size: 30 Copynumber: 10.6 Consensus size: 30
233246 ATTTGGGGTT
* *
233256 AAAATGTGATTTTGGAAAAGTTTAGG-GTG
1 AAAATGTAATTTTGGAAAAGTTTAGGAGTC
* * *
233285 AAAATGTGATTTTGGAAAGGTTTA-TAGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGA-GTC
* ** * *
233315 AAAATGTGATTTTGGGGAGGTTT--GACGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGA-GTC
* * * *
233344 AAAATGTGATTTTTGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGAGTC
* *
233374 AAAATGTAATTTT-AAAGAAGTTT-GGGGTC
1 AAAATGTAATTTTGGAA-AAGTTTAGGAGTC
* * * *
233403 AAAATGTAATTTTAGAAAAATTT-TGAGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGA-GTC
* *
233433 AAAATGTAATTTTGGGAAAGTTTAGGAGCC
1 AAAATGTAATTTTGGAAAAGTTTAGGAGTC
** *
233463 AAAATGTAATTTTAAAAAATTTTGAGG-GTC
1 AAAATGTAATTTTGGAAAAGTTT-AGGAGTC
** ** *
233493 AAAATACAATTTAAGAAAAGTTTGAGG-TTC
1 AAAATGTAATTTTGGAAAAGTTT-AGGAGTC
** ** *
233523 AAAATGTAATTTTAAAAAAAATTAAG-GT-
1 AAAATGTAATTTTGGAAAAGTTTAGGAGTC
233551 AAAATTGTAATTTTGGAAA
1 AAAA-TGTAATTTTGGAAA
233570 TAAAAAGGGG
Statistics
Matches: 227, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
28 4 0.02
29 86 0.38
30 131 0.58
31 6 0.03
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGAGTC
Found at i:233497 original size:60 final size:58
Alignment explanation
Indices: 233373--233569 Score: 202
Period size: 60 Copynumber: 3.3 Consensus size: 58
233363 GTTTAGGGGT
* *
233373 TAAAATGTAATTTT-AAAGAAGTTTG-GGGTCAAAATGTAATTTTAGAAAAATTTTGAGG
1 TAAAATGTAATTTTGGAA-AAGTTTGAGGGCCAAAATGTAATTTTA-AAAAATTTTGAGG
*
233431 TTAAAATGTAATTTTGGGAAAGTTT-AGGAGCCAAAATGTAATTTTAAAAAATTTTGAGGG
1 -TAAAATGTAATTTTGGAAAAGTTTGAGG-GCCAAAATGTAATTTTAAAAAATTTTGA-GG
** ** ** ** *
233491 TCAAAATACAATTTAAGAAAAGTTTGAGGTTCAAAATGTAATTTTAAAAAAAATTAAGG
1 T-AAAATGTAATTTTGGAAAAGTTTGAGGGCCAAAATGTAATTTTAAAAAATTTTGAGG
233550 TAAAATTGTAATTTTGGAAA
1 TAAAA-TGTAATTTTGGAAA
233570 TAAAAAGGGG
Statistics
Matches: 114, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
58 4 0.04
59 47 0.41
60 60 0.53
61 3 0.03
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (58 bp):
TAAAATGTAATTTTGGAAAAGTTTGAGGGCCAAAATGTAATTTTAAAAAATTTTGAGG
Found at i:234494 original size:27 final size:26
Alignment explanation
Indices: 234464--234514 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
234454 TTTAAATTTG
*
234464 TTTTTAATAT-TTTTATATTTATTTAC
1 TTTTTTATATATTTTATATTT-TTTAC
*
234490 TTTTTTATTTATTTTATATTTTTTA
1 TTTTTTATATATTTTATATTTTTTA
234515 AACTCGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTTATATATTTTATATTTTTTAC
Found at i:234565 original size:16 final size:16
Alignment explanation
Indices: 234544--234576 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
234534 TAATAAATGG
234544 AAATAAATGATG-TAAT
1 AAATAAAT-ATGTTAAT
234560 AAATAAATATGTTAAT
1 AAATAAATATGTTAAT
234576 A
1 A
234577 TATATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (16 bp):
AAATAAATATGTTAAT
Found at i:235975 original size:50 final size:50
Alignment explanation
Indices: 235907--236163 Score: 198
Period size: 50 Copynumber: 5.2 Consensus size: 50
235897 CCTGTCATGT
* ** *
235907 TTCTAAGGTACT-AGGTTCGCCGTTGTGACCTTAACCTTTCCCATCACATC
1 TTCTAAGGTA-TAAAGTTCGCCGTTACGACCTCAACCTTTCCCATCACATC
* *
235957 TTCTGAGGTATAAAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATC
1 TTCTAAGGTATAAAGTTCGCCGTTACGACCTCAACCTTTCCCATCACATC
** * * * * * *
236007 TTCTAAGGTACCAGGTTCGTCGTTACGGCCTCAACCTTTCCCTTCATATA
1 TTCTAAGGTATAAAGTTCGCCGTTACGACCTCAACCTTTCCCATCACATC
* * * * * *
236057 TTC-ATGGTATCAGGTTCGCCGTTGCGGCCTCAACCTTTCCC-TCCATATC
1 TTCTAAGGTATAAAGTTCGCCGTTACGACCTCAACCTTTCCCAT-CACATC
* **** * * ** *
236106 TTC-ATGGTACCGGGTTCACTGTTGTGGCCTCAACCTTTCCCATCACATC
1 TTCTAAGGTATAAAGTTCGCCGTTACGACCTCAACCTTTCCCATCACATC
236155 TTCTAAGGT
1 TTCTAAGGT
236164 GTTGGATTCA
Statistics
Matches: 177, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 84 0.47
50 92 0.52
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (50 bp):
TTCTAAGGTATAAAGTTCGCCGTTACGACCTCAACCTTTCCCATCACATC
Found at i:236087 original size:99 final size:99
Alignment explanation
Indices: 235907--236402 Score: 400
Period size: 99 Copynumber: 5.0 Consensus size: 99
235897 CCTGTCATGT
* * * * * * * * *
235907 TTCTAAGGTACTAGGTTCGCCGTTGTGACCTTAACCTTTCCCATCACATCTTC-TGAGGTATAAA
1 TTCTAAGGTACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT--GGTATCAG
* *
235971 GTTCGCCGTTACGGCCTCAACCTTTCCCATCACATC
64 GTTCGCCGTTGCGGCCTCAACCTTTCCCATCATATC
* * *
236007 TTCTAAGGTACCAGGTTCGTCGTTACGGCCTCAACCTTTCCCTTCATATATTCATGGTATCAGGT
1 TTCTAAGGTACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCAGGT
236072 TCGCCGTTGCGGCCTCAACCTTTCCC-TCCATATC
66 TCGCCGTTGCGGCCTCAACCTTTCCCAT-CATATC
* * * * * * * * *
236106 TTC-ATGGTACCGGGTTC-ACTGTTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTGT-TG
1 TTCTAAGGTACCAGGTTCGTC-GTTGCGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATCAG
* * * * * * *
236168 GATTCACCGTCGCGTCCTCAATCATTCCCTTCAAATC
64 G-TTCGCCGTTGCGGCCTCAACCTTTCCCATCATATC
* * * *** *
236205 TT-TATGGTACCAGATT-TTCCGTTGCAATCTCAATCC-TTCCCTTCAAATCTTCATGGTATCGG
1 TTCTAAGGTACCAGGTTCGT-CGTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTATCAG
* *
236267 GTTAGCCGTTACGGCCTCAACCTTTCCCATCATATC
64 GTTCGCCGTTGCGGCCTCAACCTTTCCCATCATATC
** ** * *
236303 TTCTAAGGT-GTAGGATTTATCGTTGCGGCCTCAATCC-TTCCCTTCAAATCTTCATGGTACCGG
1 TTCTAAGGTACCAGG-TTCGTCGTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTATCAG
* **
236366 GTTCGCCGTTGTGGCCTCAACCTTTCCTGTCATATC
64 GTTCGCCGTTGCGGCCTCAACCTTTCCCATCATATC
236402 T
1 T
236403 CCAGGGTATT
Statistics
Matches: 317, Mismatches: 65, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
97 1 0.00
98 77 0.24
99 189 0.60
100 49 0.15
101 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (99 bp):
TTCTAAGGTACCAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCAGGT
TCGCCGTTGCGGCCTCAACCTTTCCCATCATATC
Found at i:236090 original size:49 final size:49
Alignment explanation
Indices: 235919--236442 Score: 351
Period size: 49 Copynumber: 10.6 Consensus size: 49
235909 CTAAGGTACT
* * * * * *
235919 AGGTTCGCCGTTGTGACCTTAACCTTTCCCATCACATCTTC-TGAGGTATA
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCAT--GGTATC
* * * * * *
235969 AAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACC
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATC
* * *
236019 AGGTTCGTCGTTACGGCCTCAACCTTTCCCTTCATATATTCATGGTATC
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
* *
236068 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTCCATATCTTCATGGTACC
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
* * * * * * * *
236117 GGGTTCACTGTTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTGT-
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATC
* * * * * * * * *
236166 TGGATTCACCGTCGCGTCCTCAATCATTCCCTTCAAATCTTTATGGTACC
1 AGG-TTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
* ** *** *
236216 AGATTTTCCGTTGCAATCTCAATCC-TTCCCTTCAAATCTTCATGGTATC
1 AGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCATATCTTCATGGTATC
* * * * * *
236265 GGGTTAGCCGTTACGGCCTCAACCTTTCCCATCATATCTTCTAAGGTGT-
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTATC
*** * *
236314 AGGATTTATCGTTGCGGCCTCAATCC-TTCCCTTCAAATCTTCATGGTACC
1 AGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCATATCTTCATGGTATC
* * * * *
236364 GGGTTCGCCGTTGTGGCCTCAACCTTT-CCTGTCATATCTCCAGGGTATT
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCATATCTTCATGGTATC
* * * * *
236413 AGATTTGGCGTTGTGGCCTCAATC-TTCCCT
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCT
236443 ATCAAACCTA
Statistics
Matches: 369, Mismatches: 91, Indels: 29
0.75 0.19 0.06
Matches are distributed among these distances:
48 9 0.02
49 211 0.57
50 147 0.40
51 2 0.01
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (49 bp):
AGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTATC
Found at i:236411 original size:148 final size:147
Alignment explanation
Indices: 235913--236411 Score: 509
Period size: 148 Copynumber: 3.4 Consensus size: 147
235903 ATGTTTCTAA
* * * * * * *** *
235913 GGTACTAGGTTCGCCGTTGTGACCTTAACCTTTCCCATCACATCTTCTGAGGTATAAAGTTCGCC
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTT-CCTTCATATCTTCAG-GGTATCGGGTTAGCC
** * *
235978 GTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGG-TTCGTCGTTACGGCCTCAA-
64 GTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGT-GTAGGATTCATCGTTGCGGCCTCAAT
* *
236041 CCTTTCCCTTCATATATTCAT
128 CC-TTCCCTTCAAATCTTCAT
* * * * * *
236062 GGTATCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTCCATATCTTCATGGTACCGGGTTCA-CT
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTT-CCTTCATATCTTCAGGGTATCGGGTT-AGCC
** * * * *
236126 GTTGTGGCCTCAACCTTTCCCATCACATCTTCTAAGGTGTTGGATTCACCGTCGCGTCCTCAATC
64 GTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTGTAGGATTCATCGTTGCGGCCTCAATC
* *
236191 ATTCCCTTCAAATCTTTAT
129 CTTCCCTTCAAATCTTCAT
* ** * * * * *
236210 GGTACCAGATTTTCCGTTGCAATCTCAATCCTTCCCTTCAAATCTTCATGGTATCGGGTTAGCCG
1 GGTACCAGGTTCGCCGTTGCGACCTCAA-CCTTTCCTTCATATCTTCAGGGTATCGGGTTAGCCG
* *
236275 TTACGGCCTCAACCTTTCCCATCATATCTTCTAAGGTGTAGGATTTATCGTTGCGGCCTCAATCC
65 TTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTGTAGGATTCATCGTTGCGGCCTCAATCC
236340 TTCCCTTCAAATCTTCAT
130 TTCCCTTCAAATCTTCAT
* * * *
236358 GGTACCGGGTTCGCCGTTGTGGCCTCAACCTTTCCTGTCATATCTCCAGGGTAT
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCT-TCATATCTTCAGGGTAT
236412 TAGATTTGGC
Statistics
Matches: 280, Mismatches: 64, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
147 10 0.04
148 226 0.81
149 44 0.16
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.34
Consensus pattern (147 bp):
GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCTTCATATCTTCAGGGTATCGGGTTAGCCGT
TACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTGTAGGATTCATCGTTGCGGCCTCAATCCT
TCCCTTCAAATCTTCAT
Found at i:245785 original size:16 final size:18
Alignment explanation
Indices: 245766--245798 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
245756 AAATGAAGTT
245766 TTAAAA-AA-ATTTTGGG
1 TTAAAATAAGATTTTGGG
245782 TTAAAATAAGATTTTGG
1 TTAAAATAAGATTTTGG
245799 AAAAGTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (18 bp):
TTAAAATAAGATTTTGGG
Found at i:245947 original size:30 final size:29
Alignment explanation
Indices: 245748--246153 Score: 285
Period size: 30 Copynumber: 13.9 Consensus size: 29
245738 AAATAAAAAA
* *
245748 GGGGTCAAAAATG-AAGTTTTAAAAAAATTT
1 GGGGTC-AAAATGTAA-TTTTAGAAAAGTTT
* * * *
245778 TGGGTTAAAAT-AAGATTTTGGAAAAGTTT
1 GGGGTCAAAATGTA-ATTTTAGAAAAGTTT
* * * *
245807 AGGGTGAAAATGTGATTTTA-AAAAGGTTA
1 GGGGTCAAAATGTAATTTTAGAAAA-GTTT
* * ** *
245836 GGGGTCAAAA-GTGATTTTGGGGAGGTTT
1 GGGGTCAAAATGTAATTTTAGAAAAGTTT
*
245864 GGGGTCAAAATGTGATTTTA-AAAAGTTT
1 GGGGTCAAAATGTAATTTTAGAAAAGTTT
* *
245892 GGGGTTAAAATGTATTTTTAG-AAAGTTT
1 GGGGTCAAAATGTAATTTTAGAAAAGTTT
* * *
245920 AAGGGTTAAAATATAATTTTAGAAAAGTTT
1 -GGGGTCAAAATGTAATTTTAGAAAAGTTT
* *
245950 GAGGGTTAAAATGTAATTTTAGAGAAGTTT
1 G-GGGTCAAAATGTAATTTTAGAAAAGTTT
* ** *
245980 AGGGATCAAAACATAATTTTGGAAAAGTTT
1 -GGGGTCAAAATGTAATTTTAGAAAAGTTT
* * *
246010 AGGGTCCAAAATGTAATTTTA-AGGAGGTTT
1 GGGGT-CAAAATGTAATTTTAGA-AAAGTTT
* * *
246040 GGGAGTTAAAATATAATTTTGGAAAAGTTTT
1 GGG-GTCAAAATGTAATTTTAGAAAAG-TTT
246071 GGGGTCAAAATGTAA-TTTAGGAAAAGTTT
1 GGGGTCAAAATGTAATTTTA-GAAAAGTTT
* *
246100 GGAGGTTAAAAT-TAAATTTTGGAAAAGTTCT
1 GG-GGTCAAAATGT-AATTTTAGAAAAGTT-T
246131 -GGGTCAAAATGTAATTTT-GAAAA
1 GGGGTCAAAATGTAATTTTAGAAAA
246154 TAAAAGGGGC
Statistics
Matches: 298, Mismatches: 56, Indels: 46
0.75 0.14 0.12
Matches are distributed among these distances:
28 59 0.20
29 96 0.32
30 129 0.43
31 14 0.05
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
GGGGTCAAAATGTAATTTTAGAAAAGTTT
Found at i:247090 original size:18 final size:17
Alignment explanation
Indices: 247061--247106 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
247051 CTGTTTTTAA
*
247061 TATTTTTATATTTATTT
1 TATTTTTTTATTTATTT
247078 TACTTTTTTTATTTATTT
1 TA-TTTTTTTATTTATTT
247096 TATATTTTTTA
1 TAT-TTTTTTA
247107 AACTCGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTTTATTTATTT
Found at i:248083 original size:41 final size:41
Alignment explanation
Indices: 248024--248150 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 41
248014 ATATTTACCA
* *
248024 TATCATGCATATCGTATAGCATAATTAATCAAATACTAACT
1 TATCATTCATATCATATAGCATAATTAATCAAATACTAACT
** * * *
248065 TATCATTCATATCATATAGCATGCTCAACCAAATAATAATCATTT
1 TATCATTCATATCATATAGCATAATTAATCAAATACTAA-C---T
* * *
248110 TATCATTCATGTCATATAGCATAGTTAATCAGATACTAACT
1 TATCATTCATATCATATAGCATAATTAATCAAATACTAACT
248151 ATTTTGTCAT
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
41 33 0.49
42 1 0.01
44 1 0.01
45 33 0.49
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.35
Consensus pattern (41 bp):
TATCATTCATATCATATAGCATAATTAATCAAATACTAACT
Found at i:248155 original size:45 final size:45
Alignment explanation
Indices: 248024--248170 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 45
248014 ATATTTACCA
* * *
248024 TATCATGCATATCGTATAGCATAATTAATCAAATACTAAC----T
1 TATCATTCATATCATATAGCATAGTTAATCAAATACTAACTATTT
* * *
248065 TATCATTCATATCATATAGCAT-GCTCAACCAAATAATAA-TCATTT
1 TATCATTCATATCATATAGCATAG-TTAATCAAATACTAACT-ATTT
* *
248110 TATCATTCATGTCATATAGCATAGTTAATCAGATACTAACTATTT
1 TATCATTCATATCATATAGCATAGTTAATCAAATACTAACTATTT
* *
248155 TGTCATTTATATCATA
1 TATCATTCATATCATA
248171 GTTAACCAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
41 32 0.38
45 50 0.60
46 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (45 bp):
TATCATTCATATCATATAGCATAGTTAATCAAATACTAACTATTT
Found at i:248599 original size:28 final size:28
Alignment explanation
Indices: 248550--248801 Score: 202
Period size: 28 Copynumber: 8.9 Consensus size: 28
248540 ATTTTTTTGA
* * *
248550 AAAATAGTGGCAAAACTATAAAATATGG
1 AAAACAGTGGCAAAATTGTAAAATATGG
* * **
248578 AAAACAATGGCGAAATTGTAAAAT-TAAA
1 AAAACAGTGGCAAAATTGTAAAATAT-GG
* *
248606 AAAATAGTGGCAAAATTGTAAAATCTGG
1 AAAACAGTGGCAAAATTGTAAAATATGG
* * *
248634 AAAACCAGTGGAAAAATTGTAAAATCTAG
1 AAAA-CAGTGGCAAAATTGTAAAATATGG
* * *
248663 AAAATAGTGGCAAAAATGTAAAATATGA
1 AAAACAGTGGCAAAATTGTAAAATATGG
* * *
248691 AAAACTAGTGGCAAAACTATAAAATCTGG
1 AAAAC-AGTGGCAAAATTGTAAAATATGG
* * * * *
248720 AAAATAGTGGTAAAACTATAAAATTTGG
1 AAAACAGTGGCAAAATTGTAAAATATGG
* * *
248748 AAAA-TGGGGAAAAAATTGTAAAATATGG
1 AAAACAGTGG-CAAAATTGTAAAATATGG
*
248776 AAAACCAGTGGCAAAACTGTAAAATA
1 AAAA-CAGTGGCAAAATTGTAAAATA
248802 GTGGCAATTT
Statistics
Matches: 178, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
27 4 0.02
28 109 0.61
29 62 0.35
30 3 0.02
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (28 bp):
AAAACAGTGGCAAAATTGTAAAATATGG
Found at i:248676 original size:57 final size:56
Alignment explanation
Indices: 248550--248801 Score: 256
Period size: 57 Copynumber: 4.4 Consensus size: 56
248540 ATTTTTTTGA
* * ** *
248550 AAAATAGTGGCAAAACTATAAAATATGGAAAACAATGGCGAAATTGTAAAAT-TAAA
1 AAAATAGTGGCAAAACTGTAAAATATGGAAAACAGTGGAAAAATTGTAAAATCT-AG
* *
248606 AAAATAGTGGCAAAATTGTAAAATCTGGAAAACCAGTGGAAAAATTGTAAAATCTAG
1 AAAATAGTGGCAAAACTGTAAAATATGGAAAA-CAGTGGAAAAATTGTAAAATCTAG
* * * * * *
248663 AAAATAGTGGCAAAAATGTAAAATATGAAAAACTAGTGGCAAAACTATAAAATCTGG
1 AAAATAGTGGCAAAACTGTAAAATATGGAAAAC-AGTGGAAAAATTGTAAAATCTAG
* * * * * * *
248720 AAAATAGTGGTAAAACTATAAAATTTGGAAAA-TGGGGAAAAAATTGTAAAATATGG
1 AAAATAGTGGCAAAACTGTAAAATATGGAAAACAGTGG-AAAAATTGTAAAATCTAG
*
248776 AAAACCAGTGGCAAAACTGTAAAATA
1 AAAA-TAGTGGCAAAACTGTAAAATA
248802 GTGGCAATTT
Statistics
Matches: 162, Mismatches: 29, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
55 3 0.02
56 48 0.30
57 110 0.68
58 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (56 bp):
AAAATAGTGGCAAAACTGTAAAATATGGAAAACAGTGGAAAAATTGTAAAATCTAG
Found at i:248752 original size:85 final size:85
Alignment explanation
Indices: 248550--248800 Score: 290
Period size: 85 Copynumber: 3.0 Consensus size: 85
248540 ATTTTTTTGA
* * * * * * *
248550 AAAATAGTGGCAAAACTATAAAATATGGAAAACAATGGCGAAATTGTAAAAT-TAAAAAAATAGT
1 AAAATAGTGGAAAAACTATAAAATATGGAAAATAGTGGCAAAAATGTAAAATATGAAAAACTAGT
*
248614 GGCAAAATTGTAAAATCTGG
66 GGCAAAACTGTAAAATCTGG
* * * * *
248634 AAAACCAGTGGAAAAATTGTAAAATCTAGAAAATAGTGGCAAAAATGTAAAATATGAAAAACTAG
1 AAAA-TAGTGGAAAAACTATAAAATATGGAAAATAGTGGCAAAAATGTAAAATATGAAAAACTAG
*
248699 TGGCAAAACTATAAAATCTGG
65 TGGCAAAACTGTAAAATCTGG
* * * * * *
248720 AAAATAGTGGTAAAACTATAAAATTTGGAAAAT-GGGGAAAAAATTGTAAAATATGGAAAACCAG
1 AAAATAGTGGAAAAACTATAAAATATGGAAAATAGTGGCAAAAA-TGTAAAATATGAAAAACTAG
248784 TGGCAAAACTGTAAAAT
65 TGGCAAAACTGTAAAAT
248801 AGTGGCAATT
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
84 12 0.09
85 95 0.68
86 32 0.23
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (85 bp):
AAAATAGTGGAAAAACTATAAAATATGGAAAATAGTGGCAAAAATGTAAAATATGAAAAACTAGT
GGCAAAACTGTAAAATCTGG
Found at i:249273 original size:3 final size:3
Alignment explanation
Indices: 249265--249363 Score: 189
Period size: 3 Copynumber: 33.0 Consensus size: 3
249255 AGGATGTGGG
*
249265 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
249313 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
249361 AAT
1 AAT
249364 GGGCTTAAAA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:252038 original size:27 final size:27
Alignment explanation
Indices: 251998--252060 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
251988 TTCTGAACTT
*
251998 TGGCTCGAAGGAGCATTACTCTATATC
1 TGGCTCGAAAGAGCATTACTCTATATC
* * *
252025 TGGCTCGAAAGAGCATTATTCTATGTT
1 TGGCTCGAAAGAGCATTACTCTATATC
252052 TGGCTCGAA
1 TGGCTCGAA
252061 TAAGCCAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (27 bp):
TGGCTCGAAAGAGCATTACTCTATATC
Found at i:254494 original size:25 final size:25
Alignment explanation
Indices: 254466--254549 Score: 141
Period size: 25 Copynumber: 3.4 Consensus size: 25
254456 AGACAGAATA
*
254466 TACGAGCCAGGCAGAATATCGCTCT
1 TACGAGCCAGACAGAATATCGCTCT
* *
254491 TACGAGCTAGACGGAATATCGCTCT
1 TACGAGCCAGACAGAATATCGCTCT
254516 TACGAGCCAGACAGAATATCGCTCT
1 TACGAGCCAGACAGAATATCGCTCT
254541 TACGAGCCA
1 TACGAGCCA
254550 CAGTTCAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (25 bp):
TACGAGCCAGACAGAATATCGCTCT
Found at i:258652 original size:11 final size:11
Alignment explanation
Indices: 258579--258654 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
258569 ATTCAAAAAA
*
258579 TAATATTATTT
1 TAATATTAATT
258590 TAATATTTTAATAT
1 TAATA--TTAAT-T
258604 TAA-ATTTAATT
1 TAATA-TTAATT
258615 TAATACTTAATT
1 TAATA-TTAATT
*
258627 TAATAGT-ATT
1 TAATATTAATT
258637 T--TATTAATT
1 TAATATTAATT
258646 TAATATTAA
1 TAATATTAA
258655 AGTGATTATC
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.07
10 4 0.07
11 16 0.30
12 18 0.33
13 5 0.09
14 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:258673 original size:31 final size:29
Alignment explanation
Indices: 258638--258695 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
258628 AATAGTATTT
*
258638 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
258669 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
258696 GTAGATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:258728 original size:54 final size:51
Alignment explanation
Indices: 258659--258778 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 51
258649 TATTAAAGTG
* *
258659 ATTATCTTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAACATTCTATT
1 ATTAT-TTAATATTAAATTAAATCTAATATTTATCTT-T--ATAAACATTCTATT
* * *
258714 ATTATTTAATATTAAATTTAATCTAATATTTATCTTTATAAATATTCTGTT
1 ATTATTTAATATTAAATTAAATCTAATATTTATCTTTATAAACATTCTATT
258765 A--ATTTAATATTAAA
1 ATTATTTAATATTAAA
258779 GTGATTAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
49 13 0.22
51 13 0.22
53 1 0.02
54 28 0.47
55 5 0.08
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (51 bp):
ATTATTTAATATTAAATTAAATCTAATATTTATCTTTATAAACATTCTATT
Found at i:266248 original size:24 final size:23
Alignment explanation
Indices: 266211--266273 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
266201 AAAGAAGAGA
* * *
266211 AAAATAAGTGAAAAGAACAAAAAT
1 AAAATGAGT-AAAAAAACAAAAAG
*
266235 AAAATGAGTAAAAACACAAAAAG
1 AAAATGAGTAAAAAAACAAAAAG
266258 AAAA-GAGTAAGAAAAA
1 AAAATGAGTAA-AAAAA
266274 ATGTGAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 6 0.18
23 19 0.58
24 8 0.24
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (23 bp):
AAAATGAGTAAAAAAACAAAAAG
Done.